Quick update: currently, using service account credentials isn't supported by the endpoints, so the Method not found response is expected, but we are working on getting this supported. You can apply to be allowlisted if you are in the Firebase Alpha Program.
To workaround the issue, please use either firebase login or application default credentials. Since you're seeing this error when using the MCP server, I think that the issue is that your login credentials may have been invalid at some point. Try re-authenticating using firebase login --reauth
Originally posted by @aalej in firebase/firebase-tools#9876 (comment)