diff --git a/packages/core/src/__mocks__/user.ts b/packages/core/src/__mocks__/user.ts
index 390f367af..8b9c8f11b 100644
--- a/packages/core/src/__mocks__/user.ts
+++ b/packages/core/src/__mocks__/user.ts
@@ -29,6 +29,17 @@ export const mockUserTotpMfaVerification = {
   createdAt: new Date().toISOString(),
   key: 'key',
 } satisfies User['mfaVerifications'][number];
+
+export const mockUserWebAuthnMfaVerification = {
+  id: 'fake_webauthn_id',
+  type: MfaFactor.WebAuthn,
+  createdAt: new Date().toISOString(),
+  credentialId: 'credentialId',
+  publicKey: 'publickKey',
+  counter: 0,
+  agent: 'agent',
+} satisfies User['mfaVerifications'][number];
+
 export const mockUserWithMfaVerifications: User = {
   ...mockUser,
   mfaVerifications: [mockUserTotpMfaVerification],
diff --git a/packages/core/src/__mocks__/webauthn.ts b/packages/core/src/__mocks__/webauthn.ts
index 3eec0a1be..dc9b653f7 100644
--- a/packages/core/src/__mocks__/webauthn.ts
+++ b/packages/core/src/__mocks__/webauthn.ts
@@ -1,6 +1,13 @@
-import { type WebAuthnRegistrationOptions } from '@logto/schemas';
+import {
+  type BindWebAuthnPayload,
+  MfaFactor,
+  type WebAuthnAuthenticationOptions,
+  type WebAuthnRegistrationOptions,
+  type BindWebAuthn,
+  type WebAuthnVerificationPayload,
+} from '@logto/schemas';
 
-export const mockWebAuthnCreationOptions: WebAuthnRegistrationOptions = {
+export const mockWebAuthnRegistrationOptions: WebAuthnRegistrationOptions = {
   rp: {
     name: 'Logto',
     id: 'logto.io',
@@ -18,3 +25,49 @@ export const mockWebAuthnCreationOptions: WebAuthnRegistrationOptions = {
     },
   ],
 };
+
+export const mockWebAuthnAuthenticationOptions: WebAuthnAuthenticationOptions = {
+  challenge: 'challenge',
+  allowCredentials: [
+    {
+      id: 'id',
+      type: 'public-key',
+      transports: ['internal'],
+    },
+  ],
+  userVerification: 'preferred',
+  timeout: 60_000,
+  rpId: 'logto.io',
+};
+
+export const mockBindWebAuthnPayload: BindWebAuthnPayload = {
+  type: MfaFactor.WebAuthn,
+  id: 'id',
+  rawId: 'id',
+  response: {
+    clientDataJSON: 'clientDataJSON',
+    attestationObject: 'attestationObject',
+  },
+  clientExtensionResults: {},
+};
+
+export const mockBindWebAuthn: BindWebAuthn = {
+  type: MfaFactor.WebAuthn,
+  credentialId: 'credentialId',
+  publicKey: 'publicKey',
+  transports: [],
+  counter: 0,
+  agent: 'userAgent',
+};
+
+export const mockWebAuthnVerificationPayload: WebAuthnVerificationPayload = {
+  type: MfaFactor.WebAuthn,
+  id: 'id',
+  rawId: 'id',
+  clientExtensionResults: {},
+  response: {
+    clientDataJSON: 'clientDataJSON',
+    authenticatorData: 'authenticatorData',
+    signature: 'signature',
+  },
+};
diff --git a/packages/core/src/routes/interaction/additional.test.ts b/packages/core/src/routes/interaction/additional.test.ts
index dde7b0e9d..8df3dec6b 100644
--- a/packages/core/src/routes/interaction/additional.test.ts
+++ b/packages/core/src/routes/interaction/additional.test.ts
@@ -4,7 +4,10 @@ import { createMockUtils } from '@logto/shared/esm';
 
 import { mockSignInExperience } from '#src/__mocks__/sign-in-experience.js';
 import { mockUser } from '#src/__mocks__/user.js';
-import { mockWebAuthnCreationOptions } from '#src/__mocks__/webauthn.js';
+import {
+  mockWebAuthnAuthenticationOptions,
+  mockWebAuthnRegistrationOptions,
+} from '#src/__mocks__/webauthn.js';
 import RequestError from '#src/errors/RequestError/index.js';
 import type koaAuditLog from '#src/middleware/koa-audit-log.js';
 import { createMockLogContext } from '#src/test-utils/koa-audit-log.js';
@@ -54,12 +57,15 @@ const { sendVerificationCodeToIdentifier } = await mockEsmWithActual(
   })
 );
 
-const { generateWebAuthnRegistrationOptions } = await mockEsmWithActual(
-  './utils/webauthn.js',
-  () => ({
-    generateWebAuthnRegistrationOptions: jest.fn().mockResolvedValue(mockWebAuthnCreationOptions),
-  })
-);
+const { generateWebAuthnRegistrationOptions, generateWebAuthnAuthenticationOptions } =
+  await mockEsmWithActual('./utils/webauthn.js', () => ({
+    generateWebAuthnRegistrationOptions: jest
+      .fn()
+      .mockResolvedValue(mockWebAuthnRegistrationOptions),
+    generateWebAuthnAuthenticationOptions: jest
+      .fn()
+      .mockResolvedValue(mockWebAuthnAuthenticationOptions),
+  }));
 
 const { verifyIdentifier, verifyProfile } = await mockEsmWithActual(
   './verifications/index.js',
@@ -90,6 +96,7 @@ const baseProviderMock = {
   client_id: demoAppApplicationId,
 };
 
+const findUserById = jest.fn().mockResolvedValue(mockUser);
 const tenantContext = new MockTenant(
   createMockProvider(jest.fn().mockResolvedValue(baseProviderMock)),
   {
@@ -97,7 +104,7 @@ const tenantContext = new MockTenant(
       findDefaultSignInExperience: jest.fn().mockResolvedValue(mockSignInExperience),
     },
     users: {
-      findUserById: jest.fn().mockResolvedValue(mockUser),
+      findUserById,
     },
   },
   {
@@ -246,7 +253,7 @@ describe('interaction routes', () => {
         {
           pendingMfa: {
             type: MfaFactor.WebAuthn,
-            challenge: mockWebAuthnCreationOptions.challenge,
+            challenge: mockWebAuthnRegistrationOptions.challenge,
           },
           pendingAccountId: 'generated-id',
         },
@@ -255,7 +262,7 @@ describe('interaction routes', () => {
         expect.anything()
       );
       expect(response.statusCode).toEqual(200);
-      expect(response.body).toMatchObject(mockWebAuthnCreationOptions);
+      expect(response.body).toMatchObject(mockWebAuthnRegistrationOptions);
     });
 
     it('should return WebAuthn options for existing user', async () => {
@@ -275,14 +282,113 @@ describe('interaction routes', () => {
         {
           pendingMfa: {
             type: MfaFactor.WebAuthn,
-            challenge: mockWebAuthnCreationOptions.challenge,
+            challenge: mockWebAuthnRegistrationOptions.challenge,
           },
         },
         expect.anything(),
         expect.anything(),
         expect.anything()
       );
-      expect(response.body).toMatchObject(mockWebAuthnCreationOptions);
+      expect(response.body).toMatchObject(mockWebAuthnRegistrationOptions);
+    });
+  });
+
+  describe('POST /verification/webauthn-registration', () => {
+    const path = `${interactionPrefix}/${verificationPath}/webauthn-registration`;
+
+    it('should return WebAuthn options for new user', async () => {
+      getInteractionStorage.mockReturnValue({
+        event: InteractionEvent.Register,
+      });
+      verifyIdentifier.mockResolvedValueOnce({
+        event: InteractionEvent.Register,
+      });
+      verifyProfile.mockResolvedValueOnce({
+        event: InteractionEvent.Register,
+      });
+      const response = await sessionRequest.post(path).send();
+      expect(generateWebAuthnRegistrationOptions).toBeCalled();
+      expect(storeInteractionResult).toBeCalledWith(
+        {
+          pendingMfa: {
+            type: MfaFactor.WebAuthn,
+            challenge: mockWebAuthnRegistrationOptions.challenge,
+          },
+          pendingAccountId: 'generated-id',
+        },
+        expect.anything(),
+        expect.anything(),
+        expect.anything()
+      );
+      expect(response.statusCode).toEqual(200);
+      expect(response.body).toMatchObject(mockWebAuthnRegistrationOptions);
+    });
+
+    it('should return WebAuthn options for existing user', async () => {
+      getInteractionStorage.mockReturnValue({
+        event: InteractionEvent.SignIn,
+      });
+      verifyIdentifier.mockResolvedValueOnce({
+        event: InteractionEvent.SignIn,
+      });
+      verifyProfile.mockResolvedValueOnce({
+        event: InteractionEvent.SignIn,
+      });
+      findUserById.mockResolvedValueOnce(mockUser);
+      const response = await sessionRequest.post(path).send();
+      expect(response.statusCode).toEqual(200);
+      expect(generateWebAuthnRegistrationOptions).toBeCalled();
+      expect(storeInteractionResult).toBeCalledWith(
+        {
+          pendingMfa: {
+            type: MfaFactor.WebAuthn,
+            challenge: mockWebAuthnRegistrationOptions.challenge,
+          },
+        },
+        expect.anything(),
+        expect.anything(),
+        expect.anything()
+      );
+      expect(response.body).toMatchObject(mockWebAuthnRegistrationOptions);
+    });
+  });
+
+  describe('POST /verification/webauthn-authentication', () => {
+    const path = `${interactionPrefix}/${verificationPath}/webauthn-authentication`;
+
+    afterEach(() => {
+      getInteractionStorage.mockClear();
+    });
+
+    it('should throw for non authenticated interaction', async () => {
+      getInteractionStorage.mockReturnValue({
+        event: InteractionEvent.SignIn,
+      });
+      const response = await sessionRequest.post(path).send();
+      expect(response.statusCode).toEqual(400);
+    });
+
+    it('should return WebAuthn options for existing user', async () => {
+      getInteractionStorage.mockReturnValue({
+        event: InteractionEvent.SignIn,
+        accountId: 'accountId',
+      });
+      findUserById.mockResolvedValueOnce(mockUser);
+      const response = await sessionRequest.post(path).send();
+      expect(response.statusCode).toEqual(200);
+      expect(generateWebAuthnAuthenticationOptions).toBeCalled();
+      expect(storeInteractionResult).toBeCalledWith(
+        {
+          pendingMfa: {
+            type: MfaFactor.WebAuthn,
+            challenge: mockWebAuthnRegistrationOptions.challenge,
+          },
+        },
+        expect.anything(),
+        expect.anything(),
+        expect.anything()
+      );
+      expect(response.body).toMatchObject(mockWebAuthnAuthenticationOptions);
     });
   });
 });
diff --git a/packages/core/src/routes/interaction/additional.ts b/packages/core/src/routes/interaction/additional.ts
index 587b8a8c7..6b01f2ec1 100644
--- a/packages/core/src/routes/interaction/additional.ts
+++ b/packages/core/src/routes/interaction/additional.ts
@@ -3,6 +3,7 @@ import {
   MfaFactor,
   requestVerificationCodePayloadGuard,
   webAuthnRegistrationOptionsGuard,
+  webAuthnAuthenticationOptionsGuard,
 } from '@logto/schemas';
 import type Router from 'koa-router';
 import { type IRouterParamContext } from 'koa-router';
@@ -10,6 +11,7 @@ import qrcode from 'qrcode';
 import { z } from 'zod';
 
 import { EnvSet } from '#src/env-set/index.js';
+import RequestError from '#src/errors/RequestError/index.js';
 import { type WithLogContext } from '#src/middleware/koa-audit-log.js';
 import koaGuard from '#src/middleware/koa-guard.js';
 import type TenantContext from '#src/tenants/TenantContext.js';
@@ -28,7 +30,10 @@ import {
 import { createSocialAuthorizationUrl } from './utils/social-verification.js';
 import { generateTotpSecret } from './utils/totp-validation.js';
 import { sendVerificationCodeToIdentifier } from './utils/verification-code-validation.js';
-import { generateWebAuthnRegistrationOptions } from './utils/webauthn.js';
+import {
+  generateWebAuthnAuthenticationOptions,
+  generateWebAuthnRegistrationOptions,
+} from './utils/webauthn.js';
 import { verifyIdentifier } from './verifications/index.js';
 import verifyProfile from './verifications/profile-verification.js';
 
@@ -213,4 +218,44 @@ export default function additionalRoutes<T extends IRouterParamContext>(
       }
     }
   );
+
+  router.post(
+    `${interactionPrefix}/${verificationPath}/webauthn-authentication`,
+    koaGuard({
+      status: [200],
+      response: webAuthnAuthenticationOptionsGuard,
+    }),
+    async (ctx, next) => {
+      const { interactionDetails, createLog } = ctx;
+      // Check interaction exists
+      const interaction = getInteractionStorage(interactionDetails.result);
+      const { event, accountId } = interaction;
+      assertThat(
+        event === InteractionEvent.SignIn && accountId,
+        new RequestError({
+          code: 'session.mfa.mfa_sign_in_only',
+        })
+      );
+      createLog(`Interaction.${event}.Mfa.WebAuthn.Create`);
+
+      const { mfaVerifications } = await findUserById(accountId);
+      const options = await generateWebAuthnAuthenticationOptions({
+        rpId: EnvSet.values.endpoint.hostname,
+        mfaVerifications,
+      });
+
+      await storeInteractionResult(
+        {
+          pendingMfa: { type: MfaFactor.WebAuthn, challenge: options.challenge },
+        },
+        ctx,
+        provider,
+        true
+      );
+
+      ctx.body = options;
+
+      return next();
+    }
+  );
 }
diff --git a/packages/core/src/routes/interaction/mfa.ts b/packages/core/src/routes/interaction/mfa.ts
index ea75d5586..5e7f77dea 100644
--- a/packages/core/src/routes/interaction/mfa.ts
+++ b/packages/core/src/routes/interaction/mfa.ts
@@ -98,10 +98,12 @@ export default function mfaRoutes<T extends IRouterParamContext>(
         })
       );
 
+      const { hostname, origin } = EnvSet.values.endpoint;
       const verifiedMfa = await verifyMfaPayloadVerification(
         tenant,
-        accountId,
-        verifyMfaPayloadGuard
+        verifyMfaPayloadGuard,
+        interactionStorage,
+        { accountId, rpId: hostname, origin }
       );
 
       await storeInteractionResult({ verifiedMfa }, ctx, provider, true);
diff --git a/packages/core/src/routes/interaction/utils/webauthn.test.ts b/packages/core/src/routes/interaction/utils/webauthn.test.ts
new file mode 100644
index 000000000..a36166c4d
--- /dev/null
+++ b/packages/core/src/routes/interaction/utils/webauthn.test.ts
@@ -0,0 +1,120 @@
+import { MfaFactor } from '@logto/schemas';
+import { createMockUtils } from '@logto/shared/esm';
+
+import {
+  mockUser,
+  mockUserTotpMfaVerification,
+  mockUserWebAuthnMfaVerification,
+} from '#src/__mocks__/user.js';
+import {
+  mockBindWebAuthnPayload,
+  mockWebAuthnAuthenticationOptions,
+  mockWebAuthnRegistrationOptions,
+  mockWebAuthnVerificationPayload,
+} from '#src/__mocks__/webauthn.js';
+import RequestError from '#src/errors/RequestError/index.js';
+
+const { jest } = import.meta;
+
+const { mockEsmWithActual } = createMockUtils(jest);
+
+const {
+  generateRegistrationOptions,
+  verifyRegistrationResponse,
+  generateAuthenticationOptions,
+  verifyAuthenticationResponse,
+} = await mockEsmWithActual('@simplewebauthn/server', () => ({
+  generateRegistrationOptions: jest.fn().mockResolvedValue(mockWebAuthnRegistrationOptions),
+  verifyRegistrationResponse: jest.fn().mockResolvedValue({ verified: true }),
+  generateAuthenticationOptions: jest.fn().mockResolvedValue(mockWebAuthnAuthenticationOptions),
+  verifyAuthenticationResponse: jest
+    .fn()
+    .mockResolvedValue({ verified: true, authenticationInfo: { newCounter: 1 } }),
+}));
+
+const {
+  generateWebAuthnRegistrationOptions,
+  verifyWebAuthnRegistration,
+  generateWebAuthnAuthenticationOptions,
+  verifyWebAuthnAuthentication,
+} = await import('./webauthn.js');
+
+const rpId = 'logto.io';
+const origin = 'https://logto.io';
+
+describe('generateWebAuthnRegistrationOptions', () => {
+  it('should generate registration options', async () => {
+    await expect(
+      generateWebAuthnRegistrationOptions({ rpId, user: mockUser })
+    ).resolves.toMatchObject(mockWebAuthnRegistrationOptions);
+    expect(generateRegistrationOptions).toHaveBeenCalled();
+  });
+});
+
+describe('verifyWebAuthnRegistration', () => {
+  it('should verify registration response', async () => {
+    await expect(
+      verifyWebAuthnRegistration(mockBindWebAuthnPayload, 'challenge', rpId, origin)
+    ).resolves.toHaveProperty('verified', true);
+    expect(verifyRegistrationResponse).toHaveBeenCalled();
+  });
+});
+
+describe('generateWebAuthnAuthenticationOptions', () => {
+  it('should generate authentication options', async () => {
+    await expect(
+      generateWebAuthnAuthenticationOptions({
+        rpId,
+        mfaVerifications: [mockUserWebAuthnMfaVerification],
+      })
+    ).resolves.toMatchObject(mockWebAuthnAuthenticationOptions);
+    expect(generateAuthenticationOptions).toHaveBeenCalled();
+  });
+
+  it('should throw when user webauthn verification can not be found', async () => {
+    await expect(
+      generateWebAuthnAuthenticationOptions({
+        rpId,
+        mfaVerifications: [mockUserTotpMfaVerification],
+      })
+    ).rejects.toMatchError(new RequestError('session.mfa.webauthn_verification_not_found'));
+  });
+});
+
+describe('verifyWebAuthnAuthentication', () => {
+  it('should verify authentication response', async () => {
+    await expect(
+      verifyWebAuthnAuthentication({
+        payload: {
+          ...mockWebAuthnVerificationPayload,
+          id: mockUserWebAuthnMfaVerification.credentialId,
+        },
+        challenge: 'challenge',
+        rpId,
+        origin,
+        mfaVerifications: [mockUserWebAuthnMfaVerification],
+      })
+    ).resolves.toMatchObject({
+      result: { type: MfaFactor.WebAuthn, id: mockUserWebAuthnMfaVerification.id },
+      newCounter: 1,
+    });
+    expect(verifyAuthenticationResponse).toHaveBeenCalled();
+  });
+
+  it('should return false result when the corresponding webauthn verification can not be found', async () => {
+    await expect(
+      verifyWebAuthnAuthentication({
+        payload: {
+          ...mockWebAuthnVerificationPayload,
+          id: 'not_found',
+        },
+        challenge: 'challenge',
+        rpId,
+        origin,
+        mfaVerifications: [mockUserWebAuthnMfaVerification],
+      })
+    ).resolves.toMatchObject({
+      result: false,
+    });
+  });
+});
diff --git a/packages/core/src/routes/interaction/utils/webauthn.ts b/packages/core/src/routes/interaction/utils/webauthn.ts
index e48a11aea..af914188b 100644
--- a/packages/core/src/routes/interaction/utils/webauthn.ts
+++ b/packages/core/src/routes/interaction/utils/webauthn.ts
@@ -4,13 +4,23 @@ import {
   type MfaVerificationWebAuthn,
   type User,
   type WebAuthnRegistrationOptions,
+  type MfaVerifications,
+  type WebAuthnVerificationPayload,
+  type VerifyMfaResult,
 } from '@logto/schemas';
 import {
   type GenerateRegistrationOptionsOpts,
   generateRegistrationOptions,
   verifyRegistrationResponse,
   type VerifyRegistrationResponseOpts,
+  type GenerateAuthenticationOptionsOpts,
+  generateAuthenticationOptions,
+  type VerifyAuthenticationResponseOpts,
+  verifyAuthenticationResponse,
 } from '@simplewebauthn/server';
+import { isoBase64URL } from '@simplewebauthn/server/helpers';
+
+import RequestError from '#src/errors/RequestError/index.js';
 
 type GenerateWebAuthnRegistrationOptionsParameters = {
   rpId: string;
@@ -66,3 +76,98 @@ export const verifyWebAuthnRegistration = async (
   };
   return verifyRegistrationResponse(options);
 };
+
+export const generateWebAuthnAuthenticationOptions = async ({
+  rpId,
+  mfaVerifications,
+}: {
+  rpId: string;
+  mfaVerifications: MfaVerifications;
+}) => {
+  const webAuthnVerifications = mfaVerifications.filter(
+    (verification): verification is MfaVerificationWebAuthn =>
+      verification.type === MfaFactor.WebAuthn
+  );
+
+  if (webAuthnVerifications.length === 0) {
+    throw new RequestError('session.mfa.webauthn_verification_not_found');
+  }
+
+  const options: GenerateAuthenticationOptionsOpts = {
+    timeout: 60_000,
+    allowCredentials: webAuthnVerifications.map(({ credentialId, transports }) => ({
+      id: isoBase64URL.toBuffer(credentialId),
+      type: 'public-key',
+      transports,
+    })),
+    userVerification: 'required',
+    rpID: rpId,
+  };
+  return generateAuthenticationOptions(options);
+};
+
+type VerifyWebAuthnAuthenticationParameters = {
+  payload: Omit<WebAuthnVerificationPayload, 'type'>;
+  challenge: string;
+  rpId: string;
+  origin: string;
+  mfaVerifications: MfaVerifications;
+};
+
+export const verifyWebAuthnAuthentication = async ({
+  payload,
+  challenge,
+  rpId,
+  origin,
+  mfaVerifications,
+}: VerifyWebAuthnAuthenticationParameters): Promise<{
+  result: false | VerifyMfaResult;
+  newCounter?: number;
+}> => {
+  const webAuthnVerifications = mfaVerifications.filter(
+    (verification): verification is MfaVerificationWebAuthn =>
+      verification.type === MfaFactor.WebAuthn
+  );
+  const verification = webAuthnVerifications.find(
+    ({ credentialId }) => credentialId === payload.id
+  );
+
+  if (!verification) {
+    return { result: false };
+  }
+
+  const { publicKey, credentialId, counter, transports, id } = verification;
+
+  const options: VerifyAuthenticationResponseOpts = {
+    response: {
+      ...payload,
+      type: 'public-key',
+    },
+    expectedChallenge: challenge,
+    expectedOrigin: origin,
+    expectedRPID: rpId,
+    authenticator: {
+      credentialPublicKey: isoBase64URL.toBuffer(publicKey),
+      credentialID: isoBase64URL.toBuffer(credentialId),
+      counter,
+      transports,
+    },
+    requireUserVerification: true,
+  };
+
+  try {
+    const { verified, authenticationInfo } = await verifyAuthenticationResponse(options);
+    if (!verified) {
+      return { result: false };
+    }
+    return {
+      result: {
+        type: MfaFactor.WebAuthn,
+        id,
+      },
+      newCounter: authenticationInfo.newCounter,
+    };
+  } catch {
+    return { result: false };
+  }
+};
diff --git a/packages/core/src/routes/interaction/verifications/mfa-payload-verification.test.ts b/packages/core/src/routes/interaction/verifications/mfa-payload-verification.test.ts
index a089ce04e..64c17fbf8 100644
--- a/packages/core/src/routes/interaction/verifications/mfa-payload-verification.test.ts
+++ b/packages/core/src/routes/interaction/verifications/mfa-payload-verification.test.ts
@@ -2,6 +2,12 @@ import { InteractionEvent, MfaFactor } from '@logto/schemas';
 import { createMockUtils } from '@logto/shared/esm';
 import type Provider from 'oidc-provider';
 
+import { mockUserWebAuthnMfaVerification } from '#src/__mocks__/user.js';
+import {
+  mockBindWebAuthn,
+  mockBindWebAuthnPayload,
+  mockWebAuthnVerificationPayload,
+} from '#src/__mocks__/webauthn.js';
 import RequestError from '#src/errors/RequestError/index.js';
 import { createMockLogContext } from '#src/test-utils/koa-audit-log.js';
 import { MockTenant } from '#src/test-utils/tenant.js';
@@ -13,10 +19,12 @@ const { jest } = import.meta;
 const { mockEsm } = createMockUtils(jest);
 
 const findUserById = jest.fn();
+const updateUserById = jest.fn();
 
 const tenantContext = new MockTenant(undefined, {
   users: {
     findUserById,
+    updateUserById,
   },
 });
 
@@ -24,6 +32,25 @@ const { validateTotpToken } = mockEsm('../utils/totp-validation.js', () => ({
   validateTotpToken: jest.fn().mockReturnValue(true),
 }));
 
+const { verifyWebAuthnAuthentication, verifyWebAuthnRegistration } = mockEsm(
+  '../utils/webauthn.js',
+  () => ({
+    verifyWebAuthnAuthentication: jest.fn(),
+    verifyWebAuthnRegistration: jest.fn().mockResolvedValue({
+      verified: true,
+      registrationInfo: {
+        credentialID: 'credentialId',
+        credentialPublicKey: 'publicKey',
+        counter: 0,
+      },
+    }),
+  })
+);
+
+mockEsm('@simplewebauthn/server/helpers', () => ({
+  isoBase64URL: { fromBuffer: jest.fn((value) => value) },
+}));
+
 const { bindMfaPayloadVerification, verifyMfaPayloadVerification } = await import(
   './mfa-payload-verification.js'
 );
@@ -101,6 +128,59 @@ describe('bindMfaPayloadVerification', () => {
       ).rejects.toEqual(new RequestError('session.mfa.invalid_totp_code'));
     });
   });
+
+  describe('webauthn', () => {
+    it('should return result of BindMfa', async () => {
+      await expect(
+        bindMfaPayloadVerification(
+          baseCtx,
+          mockBindWebAuthnPayload,
+          {
+            ...interaction,
+            pendingMfa: {
+              type: MfaFactor.WebAuthn,
+              challenge: 'challenge',
+            },
+          },
+          additionalParameters
+        )
+      ).resolves.toMatchObject(mockBindWebAuthn);
+
+      expect(verifyWebAuthnRegistration).toHaveBeenCalled();
+    });
+
+    it('should reject when pendingMfa is missing', async () => {
+      await expect(
+        bindMfaPayloadVerification(
+          baseCtx,
+          mockBindWebAuthnPayload,
+          interaction,
+          additionalParameters
+        )
+      ).rejects.toEqual(new RequestError('session.mfa.pending_info_not_found'));
+    });
+
+    it('should reject when webauthn faield', async () => {
+      verifyWebAuthnRegistration.mockResolvedValueOnce({
+        verified: false,
+      });
+
+      await expect(
+        bindMfaPayloadVerification(
+          baseCtx,
+          mockBindWebAuthnPayload,
+          {
+            ...interaction,
+            pendingMfa: {
+              type: MfaFactor.WebAuthn,
+              challenge: 'challenge',
+            },
+          },
+          additionalParameters
+        )
+      ).rejects.toEqual(new RequestError('session.mfa.webauthn_verification_failed'));
+    });
+  });
 });
 
 describe('verifyMfaPayloadVerification', () => {
@@ -111,10 +191,15 @@ describe('verifyMfaPayloadVerification', () => {
       });
 
       await expect(
-        verifyMfaPayloadVerification(tenantContext, 'accountId', {
-          type: MfaFactor.TOTP,
-          code: '123456',
-        })
+        verifyMfaPayloadVerification(
+          tenantContext,
+          {
+            type: MfaFactor.TOTP,
+            code: '123456',
+          },
+          { event: InteractionEvent.SignIn },
+          { rpId: 'rpId', origin: 'origin', accountId: 'accountId' }
+        )
       ).resolves.toMatchObject({
         type: MfaFactor.TOTP,
         id: 'id',
@@ -129,10 +214,15 @@ describe('verifyMfaPayloadVerification', () => {
         mfaVerifications: [],
       });
       await expect(
-        verifyMfaPayloadVerification(tenantContext, 'accountId', {
-          type: MfaFactor.TOTP,
-          code: '123456',
-        })
+        verifyMfaPayloadVerification(
+          tenantContext,
+          {
+            type: MfaFactor.TOTP,
+            code: '123456',
+          },
+          { event: InteractionEvent.SignIn },
+          { rpId: 'rpId', origin: 'origin', accountId: 'accountId' }
+        )
       ).rejects.toEqual(new RequestError('session.mfa.invalid_totp_code'));
     });
 
@@ -143,11 +233,80 @@ describe('verifyMfaPayloadVerification', () => {
       validateTotpToken.mockReturnValueOnce(false);
 
       await expect(
-        verifyMfaPayloadVerification(tenantContext, 'accountId', {
-          type: MfaFactor.TOTP,
-          code: '123456',
-        })
+        verifyMfaPayloadVerification(
+          tenantContext,
+          {
+            type: MfaFactor.TOTP,
+            code: '123456',
+          },
+          { event: InteractionEvent.SignIn },
+          { rpId: 'rpId', origin: 'origin', accountId: 'accountId' }
+        )
       ).rejects.toEqual(new RequestError('session.mfa.invalid_totp_code'));
     });
   });
+
+  describe('webauthn', () => {
+    it('should return result of VerifyMfaResult and update newCounter', async () => {
+      findUserById.mockResolvedValueOnce({
+        mfaVerifications: [mockUserWebAuthnMfaVerification],
+      });
+      const result = { type: MfaFactor.WebAuthn, id: 'id' };
+      verifyWebAuthnAuthentication.mockResolvedValueOnce({
+        result,
+        newCounter: 1,
+      });
+
+      await expect(
+        verifyMfaPayloadVerification(
+          tenantContext,
+          mockWebAuthnVerificationPayload,
+          {
+            event: InteractionEvent.SignIn,
+            pendingMfa: { type: MfaFactor.WebAuthn, challenge: 'challenge' },
+          },
+          { rpId: 'rpId', origin: 'origin', accountId: 'accountId' }
+        )
+      ).resolves.toMatchObject(result);
+
+      expect(updateUserById).toHaveBeenCalledWith('accountId', {
+        mfaVerifications: [{ ...mockUserWebAuthnMfaVerification, counter: 1 }],
+      });
+    });
+
+    it('should reject when pendingMfa can not be found', async () => {
+      findUserById.mockResolvedValueOnce({
+        mfaVerifications: [mockUserWebAuthnMfaVerification],
+      });
+      await expect(
+        verifyMfaPayloadVerification(
+          tenantContext,
+          mockWebAuthnVerificationPayload,
+          {
+            event: InteractionEvent.SignIn,
+          },
+          { rpId: 'rpId', origin: 'origin', accountId: 'accountId' }
+        )
+      ).rejects.toEqual(new RequestError('session.mfa.pending_info_not_found'));
+    });
+
+    it('should reject when webauthn result is false', async () => {
+      findUserById.mockResolvedValueOnce({
+        mfaVerifications: [mockUserWebAuthnMfaVerification],
+      });
+      verifyWebAuthnAuthentication.mockReturnValueOnce({ result: false });
+
+      await expect(
+        verifyMfaPayloadVerification(
+          tenantContext,
+          mockWebAuthnVerificationPayload,
+          {
+            event: InteractionEvent.SignIn,
+            pendingMfa: { type: MfaFactor.WebAuthn, challenge: 'challenge' },
+          },
+          { rpId: 'rpId', origin: 'origin', accountId: 'accountId' }
+        )
+      ).rejects.toEqual(new RequestError('session.mfa.webauthn_verification_failed'));
+    });
+  });
 });
diff --git a/packages/core/src/routes/interaction/verifications/mfa-payload-verification.ts b/packages/core/src/routes/interaction/verifications/mfa-payload-verification.ts
index 0e774fc24..bd63e154f 100644
--- a/packages/core/src/routes/interaction/verifications/mfa-payload-verification.ts
+++ b/packages/core/src/routes/interaction/verifications/mfa-payload-verification.ts
@@ -11,6 +11,8 @@ import {
   type VerifyMfaResult,
   type BindWebAuthn,
   type BindWebAuthnPayload,
+  type MfaVerifications,
+  type WebAuthnVerificationPayload,
 } from '@logto/schemas';
 import { isoBase64URL } from '@simplewebauthn/server/helpers';
 
@@ -20,7 +22,7 @@ import assertThat from '#src/utils/assert-that.js';
 
 import type { AnonymousInteractionResult } from '../types/index.js';
 import { validateTotpToken } from '../utils/totp-validation.js';
-import { verifyWebAuthnRegistration } from '../utils/webauthn.js';
+import { verifyWebAuthnAuthentication, verifyWebAuthnRegistration } from '../utils/webauthn.js';
 
 const verifyBindTotp = async (
   interactionStorage: AnonymousInteractionResult,
@@ -128,12 +130,79 @@ export async function bindMfaPayloadVerification(
   return verifyBindWebAuthn(interactionStorage, bindMfaPayload, ctx, { rpId, userAgent, origin });
 }
 
+async function verifyWebAuthn(
+  interactionStorage: AnonymousInteractionResult,
+  mfaVerifications: MfaVerifications,
+  { rpId, origin, payload }: { rpId: string; origin: string; payload: WebAuthnVerificationPayload }
+): Promise<{ result: VerifyMfaResult; newCounter?: number }> {
+  const { pendingMfa } = interactionStorage;
+  assertThat(pendingMfa, 'session.mfa.pending_info_not_found');
+  // Will add more type, disable the rule for now, this can be a reminder when adding new type
+
+  assertThat(pendingMfa.type === MfaFactor.WebAuthn, 'session.mfa.pending_info_not_found');
+
+  const { result, newCounter } = await verifyWebAuthnAuthentication({
+    payload,
+    challenge: pendingMfa.challenge,
+    rpId,
+    origin,
+    mfaVerifications,
+  });
+
+  assertThat(result, 'session.mfa.webauthn_verification_failed');
+
+  return {
+    result,
+    newCounter,
+  };
+}
+
 export async function verifyMfaPayloadVerification(
   tenant: TenantContext,
-  accountId: string,
-  verifyMfaPayload: VerifyMfaPayload
+  verifyMfaPayload: VerifyMfaPayload,
+  interactionStorage: AnonymousInteractionResult,
+  {
+    rpId,
+    origin,
+    accountId,
+  }: {
+    rpId: string;
+    origin: string;
+    accountId: string;
+  }
 ): Promise<VerifyMfaResult> {
   const user = await tenant.queries.users.findUserById(accountId);
 
-  return verifyTotp(user.mfaVerifications, verifyMfaPayload);
+  if (verifyMfaPayload.type === MfaFactor.TOTP) {
+    return verifyTotp(user.mfaVerifications, verifyMfaPayload);
+  }
+
+  // eslint-disable-next-line @typescript-eslint/no-unnecessary-condition
+  if (verifyMfaPayload.type === MfaFactor.WebAuthn) {
+    const { result, newCounter } = await verifyWebAuthn(interactionStorage, user.mfaVerifications, {
+      payload: verifyMfaPayload,
+      rpId,
+      origin,
+    });
+
+    if (newCounter !== undefined) {
+      // Update the authenticator's counter in the DB to the newest count in the authentication
+      await tenant.queries.users.updateUserById(accountId, {
+        mfaVerifications: user.mfaVerifications.map((mfa) => {
+          if (mfa.type !== MfaFactor.WebAuthn) {
+            return mfa;
+          }
+
+          return {
+            ...mfa,
+            counter: newCounter,
+          };
+        }),
+      });
+    }
+
+    return result;
+  }
+
+  throw new Error('Unsupported MFA type');
 }
diff --git a/packages/phrases/src/locales/de/errors/session.ts b/packages/phrases/src/locales/de/errors/session.ts
index d1f375a93..c951ed93e 100644
--- a/packages/phrases/src/locales/de/errors/session.ts
+++ b/packages/phrases/src/locales/de/errors/session.ts
@@ -37,6 +37,8 @@ const session = {
     invalid_totp_code: 'Invalid TOTP code.',
     /** UNTRANSLATED */
     webauthn_verification_failed: 'WebAuthn verification failed.',
+    /** UNTRANSLATED */
+    webauthn_verification_not_found: 'WebAuthn verification not found.',
   },
 };
 
diff --git a/packages/phrases/src/locales/en/errors/session.ts b/packages/phrases/src/locales/en/errors/session.ts
index 95b4ce517..34839f2e9 100644
--- a/packages/phrases/src/locales/en/errors/session.ts
+++ b/packages/phrases/src/locales/en/errors/session.ts
@@ -28,6 +28,7 @@ const session = {
     pending_info_not_found: 'Pending MFA info not found, please initiate MFA first.',
     invalid_totp_code: 'Invalid TOTP code.',
     webauthn_verification_failed: 'WebAuthn verification failed.',
+    webauthn_verification_not_found: 'WebAuthn verification not found.',
   },
 };
 
diff --git a/packages/phrases/src/locales/es/errors/session.ts b/packages/phrases/src/locales/es/errors/session.ts
index 724dcb3c8..888ac15c9 100644
--- a/packages/phrases/src/locales/es/errors/session.ts
+++ b/packages/phrases/src/locales/es/errors/session.ts
@@ -38,6 +38,8 @@ const session = {
     invalid_totp_code: 'Invalid TOTP code.',
     /** UNTRANSLATED */
     webauthn_verification_failed: 'WebAuthn verification failed.',
+    /** UNTRANSLATED */
+    webauthn_verification_not_found: 'WebAuthn verification not found.',
   },
 };
 
diff --git a/packages/phrases/src/locales/fr/errors/session.ts b/packages/phrases/src/locales/fr/errors/session.ts
index 9db3f7016..4f6c68d4f 100644
--- a/packages/phrases/src/locales/fr/errors/session.ts
+++ b/packages/phrases/src/locales/fr/errors/session.ts
@@ -39,6 +39,8 @@ const session = {
     invalid_totp_code: 'Invalid TOTP code.',
     /** UNTRANSLATED */
     webauthn_verification_failed: 'WebAuthn verification failed.',
+    /** UNTRANSLATED */
+    webauthn_verification_not_found: 'WebAuthn verification not found.',
   },
 };
 
diff --git a/packages/phrases/src/locales/it/errors/session.ts b/packages/phrases/src/locales/it/errors/session.ts
index 54f6856f5..0b785c59e 100644
--- a/packages/phrases/src/locales/it/errors/session.ts
+++ b/packages/phrases/src/locales/it/errors/session.ts
@@ -37,6 +37,8 @@ const session = {
     invalid_totp_code: 'Invalid TOTP code.',
     /** UNTRANSLATED */
     webauthn_verification_failed: 'WebAuthn verification failed.',
+    /** UNTRANSLATED */
+    webauthn_verification_not_found: 'WebAuthn verification not found.',
   },
 };
 
diff --git a/packages/phrases/src/locales/ja/errors/session.ts b/packages/phrases/src/locales/ja/errors/session.ts
index dac11f5c1..1245d10b5 100644
--- a/packages/phrases/src/locales/ja/errors/session.ts
+++ b/packages/phrases/src/locales/ja/errors/session.ts
@@ -35,6 +35,8 @@ const session = {
     invalid_totp_code: 'Invalid TOTP code.',
     /** UNTRANSLATED */
     webauthn_verification_failed: 'WebAuthn verification failed.',
+    /** UNTRANSLATED */
+    webauthn_verification_not_found: 'WebAuthn verification not found.',
   },
 };
 
diff --git a/packages/phrases/src/locales/ko/errors/session.ts b/packages/phrases/src/locales/ko/errors/session.ts
index 06684a733..7b4a60039 100644
--- a/packages/phrases/src/locales/ko/errors/session.ts
+++ b/packages/phrases/src/locales/ko/errors/session.ts
@@ -34,6 +34,8 @@ const session = {
     invalid_totp_code: 'Invalid TOTP code.',
     /** UNTRANSLATED */
     webauthn_verification_failed: 'WebAuthn verification failed.',
+    /** UNTRANSLATED */
+    webauthn_verification_not_found: 'WebAuthn verification not found.',
   },
 };
 
diff --git a/packages/phrases/src/locales/pl-pl/errors/session.ts b/packages/phrases/src/locales/pl-pl/errors/session.ts
index 1b2b8adce..efa149dc3 100644
--- a/packages/phrases/src/locales/pl-pl/errors/session.ts
+++ b/packages/phrases/src/locales/pl-pl/errors/session.ts
@@ -36,6 +36,8 @@ const session = {
     invalid_totp_code: 'Invalid TOTP code.',
     /** UNTRANSLATED */
     webauthn_verification_failed: 'WebAuthn verification failed.',
+    /** UNTRANSLATED */
+    webauthn_verification_not_found: 'WebAuthn verification not found.',
   },
 };
 
diff --git a/packages/phrases/src/locales/pt-br/errors/session.ts b/packages/phrases/src/locales/pt-br/errors/session.ts
index cacef9a12..47999c1c7 100644
--- a/packages/phrases/src/locales/pt-br/errors/session.ts
+++ b/packages/phrases/src/locales/pt-br/errors/session.ts
@@ -37,6 +37,8 @@ const session = {
     invalid_totp_code: 'Invalid TOTP code.',
     /** UNTRANSLATED */
     webauthn_verification_failed: 'WebAuthn verification failed.',
+    /** UNTRANSLATED */
+    webauthn_verification_not_found: 'WebAuthn verification not found.',
   },
 };
 
diff --git a/packages/phrases/src/locales/pt-pt/errors/session.ts b/packages/phrases/src/locales/pt-pt/errors/session.ts
index a7d1493be..c1938436b 100644
--- a/packages/phrases/src/locales/pt-pt/errors/session.ts
+++ b/packages/phrases/src/locales/pt-pt/errors/session.ts
@@ -39,6 +39,8 @@ const session = {
     invalid_totp_code: 'Invalid TOTP code.',
     /** UNTRANSLATED */
     webauthn_verification_failed: 'WebAuthn verification failed.',
+    /** UNTRANSLATED */
+    webauthn_verification_not_found: 'WebAuthn verification not found.',
   },
 };
 
diff --git a/packages/phrases/src/locales/ru/errors/session.ts b/packages/phrases/src/locales/ru/errors/session.ts
index f9e3b6d09..295ca1af5 100644
--- a/packages/phrases/src/locales/ru/errors/session.ts
+++ b/packages/phrases/src/locales/ru/errors/session.ts
@@ -35,6 +35,8 @@ const session = {
     invalid_totp_code: 'Invalid TOTP code.',
     /** UNTRANSLATED */
     webauthn_verification_failed: 'WebAuthn verification failed.',
+    /** UNTRANSLATED */
+    webauthn_verification_not_found: 'WebAuthn verification not found.',
   },
 };
 
diff --git a/packages/phrases/src/locales/tr-tr/errors/session.ts b/packages/phrases/src/locales/tr-tr/errors/session.ts
index 39b5feb9d..275276afa 100644
--- a/packages/phrases/src/locales/tr-tr/errors/session.ts
+++ b/packages/phrases/src/locales/tr-tr/errors/session.ts
@@ -36,6 +36,8 @@ const session = {
     invalid_totp_code: 'Invalid TOTP code.',
     /** UNTRANSLATED */
     webauthn_verification_failed: 'WebAuthn verification failed.',
+    /** UNTRANSLATED */
+    webauthn_verification_not_found: 'WebAuthn verification not found.',
   },
 };
 
diff --git a/packages/phrases/src/locales/zh-cn/errors/session.ts b/packages/phrases/src/locales/zh-cn/errors/session.ts
index 2f90e5606..5def92f67 100644
--- a/packages/phrases/src/locales/zh-cn/errors/session.ts
+++ b/packages/phrases/src/locales/zh-cn/errors/session.ts
@@ -31,6 +31,8 @@ const session = {
     invalid_totp_code: 'Invalid TOTP code.',
     /** UNTRANSLATED */
     webauthn_verification_failed: 'WebAuthn verification failed.',
+    /** UNTRANSLATED */
+    webauthn_verification_not_found: 'WebAuthn verification not found.',
   },
 };
 
diff --git a/packages/phrases/src/locales/zh-hk/errors/session.ts b/packages/phrases/src/locales/zh-hk/errors/session.ts
index c064afa1d..43f33908e 100644
--- a/packages/phrases/src/locales/zh-hk/errors/session.ts
+++ b/packages/phrases/src/locales/zh-hk/errors/session.ts
@@ -31,6 +31,8 @@ const session = {
     invalid_totp_code: 'Invalid TOTP code.',
     /** UNTRANSLATED */
     webauthn_verification_failed: 'WebAuthn verification failed.',
+    /** UNTRANSLATED */
+    webauthn_verification_not_found: 'WebAuthn verification not found.',
   },
 };
 
diff --git a/packages/phrases/src/locales/zh-tw/errors/session.ts b/packages/phrases/src/locales/zh-tw/errors/session.ts
index 9745f8be7..ee4ce4fd3 100644
--- a/packages/phrases/src/locales/zh-tw/errors/session.ts
+++ b/packages/phrases/src/locales/zh-tw/errors/session.ts
@@ -31,6 +31,8 @@ const session = {
     invalid_totp_code: 'Invalid TOTP code.',
     /** UNTRANSLATED */
     webauthn_verification_failed: 'WebAuthn verification failed.',
+    /** UNTRANSLATED */
+    webauthn_verification_not_found: 'WebAuthn verification not found.',
   },
 };
 
diff --git a/packages/schemas/src/types/interactions.ts b/packages/schemas/src/types/interactions.ts
index d48c4850e..8ac230462 100644
--- a/packages/schemas/src/types/interactions.ts
+++ b/packages/schemas/src/types/interactions.ts
@@ -114,6 +114,11 @@ export const bindWebAuthnPayloadGuard = z.object({
   type: z.literal(MfaFactor.WebAuthn),
   id: z.string(),
   rawId: z.string(),
+  /**
+   * The response from WebAuthn API
+   *
+   * @see {@link https://developer.mozilla.org/en-US/docs/Web/API/PublicKeyCredential}
+   */
   response: z.object({
     clientDataJSON: z.string(),
     attestationObject: z.string(),
@@ -147,7 +152,23 @@ export const totpVerificationPayloadGuard = bindTotpPayloadGuard;
 
 export type TotpVerificationPayload = z.infer<typeof totpVerificationPayloadGuard>;
 
-export const verifyMfaPayloadGuard = totpVerificationPayloadGuard;
+export const webAuthnVerificationPayloadGuard = bindWebAuthnPayloadGuard
+  .omit({ response: true })
+  .extend({
+    response: z.object({
+      clientDataJSON: z.string(),
+      authenticatorData: z.string(),
+      signature: z.string(),
+      userHandle: z.string().optional(),
+    }),
+  });
+
+export type WebAuthnVerificationPayload = z.infer<typeof webAuthnVerificationPayloadGuard>;
+
+export const verifyMfaPayloadGuard = z.discriminatedUnion('type', [
+  totpVerificationPayloadGuard,
+  webAuthnVerificationPayloadGuard,
+]);
 
 export type VerifyMfaPayload = z.infer<typeof verifyMfaPayloadGuard>;
 
diff --git a/packages/schemas/src/types/mfa.ts b/packages/schemas/src/types/mfa.ts
index 8f37dd727..40e2d8497 100644
--- a/packages/schemas/src/types/mfa.ts
+++ b/packages/schemas/src/types/mfa.ts
@@ -48,3 +48,28 @@ export const webAuthnRegistrationOptionsGuard = z.object({
 });
 
 export type WebAuthnRegistrationOptions = z.infer<typeof webAuthnRegistrationOptionsGuard>;
+
+export const webAuthnAuthenticationOptionsGuard = z.object({
+  challenge: z.string(),
+  timeout: z.number().optional(),
+  rpId: z.string().optional(),
+  allowCredentials: z
+    .array(
+      z.object({
+        type: z.literal('public-key'),
+        id: z.string(),
+        transports: webAuthnTransportGuard.array().optional(),
+      })
+    )
+    .optional(),
+  userVerification: z.enum(['required', 'preferred', 'discouraged']).optional(),
+  extensions: z
+    .object({
+      appid: z.string().optional(),
+      credProps: z.boolean().optional(),
+      hmacCreateSecret: z.boolean().optional(),
+    })
+    .optional(),
+});
+
+export type WebAuthnAuthenticationOptions = z.infer<typeof webAuthnAuthenticationOptionsGuard>;