I've searched around on NI's website and haven't found anything too similar to this. You might want to try reinstalling the Application Builder. Also, check to see if any executables you build with the Application Builder work. If none of them do, you know the issue is with that and, if any of them work, you know that the problem is with the particular application you are working with. This will help you to start troubleshooting the application.
J.R. Allen