diff --git a/.changeset/purple-peas-shave.md b/.changeset/purple-peas-shave.md
new file mode 100644
index 00000000000..f8236388834
--- /dev/null
+++ b/.changeset/purple-peas-shave.md
@@ -0,0 +1,5 @@
+---
+"@clerk/react-router": patch
+---
+
+Fixed an issue where manually specified options in the middleware were not being respected.
diff --git a/packages/react-router/src/server/__tests__/clerkMiddleware.test.ts b/packages/react-router/src/server/__tests__/clerkMiddleware.test.ts
index 8be8e33c419..b69447ba3b6 100644
--- a/packages/react-router/src/server/__tests__/clerkMiddleware.test.ts
+++ b/packages/react-router/src/server/__tests__/clerkMiddleware.test.ts
@@ -65,6 +65,14 @@ describe('clerkMiddleware', () => {
     const result = await middleware(args, mockNext);
 
     expect(mockAuthenticateRequest).toHaveBeenCalledWith(expect.any(Object), {
+      apiUrl: undefined,
+      secretKey: 'sk_test_...',
+      jwtKey: undefined,
+      proxyUrl: undefined,
+      isSatellite: undefined,
+      domain: undefined,
+      publishableKey: 'pk_test_...',
+      machineSecretKey: undefined,
       audience: '',
       authorizedParties: [],
       signInUrl: '',
diff --git a/packages/react-router/src/server/clerkMiddleware.ts b/packages/react-router/src/server/clerkMiddleware.ts
index 2e1f2d62d72..af71c526097 100644
--- a/packages/react-router/src/server/clerkMiddleware.ts
+++ b/packages/react-router/src/server/clerkMiddleware.ts
@@ -34,13 +34,39 @@ export const clerkMiddleware = (options?: ClerkMiddlewareOptions): MiddlewareFun
   return async (args, next) => {
     const clerkRequest = createClerkRequest(patchRequest(args.request));
     const loadedOptions = loadOptions(args, options);
-    const { audience, authorizedParties } = loadedOptions;
-    const { signInUrl, signUpUrl, afterSignInUrl, afterSignUpUrl } = loadedOptions;
-    const { organizationSyncOptions } = loadedOptions;
-    const requestState = await clerkClient(args).authenticateRequest(clerkRequest, {
+
+    // Pick only the properties needed by authenticateRequest.
+    // Used when manually providing options to the middleware.
+    const {
+      apiUrl,
+      secretKey,
+      jwtKey,
+      proxyUrl,
+      isSatellite,
+      domain,
+      publishableKey,
+      machineSecretKey,
+      audience,
+      authorizedParties,
+      signInUrl,
+      signUpUrl,
+      afterSignInUrl,
+      afterSignUpUrl,
       organizationSyncOptions,
+    } = loadedOptions;
+
+    const requestState = await clerkClient(args).authenticateRequest(clerkRequest, {
+      apiUrl,
+      secretKey,
+      jwtKey,
+      proxyUrl,
+      isSatellite,
+      domain,
+      publishableKey,
+      machineSecretKey,
       audience,
       authorizedParties,
+      organizationSyncOptions,
       signInUrl,
       signUpUrl,
       afterSignInUrl,