Sorry this is so late a response to your question. I'm not certain if this is your issue but, I had this issue due to my battery not making contact because the battery's positive end contact was a little too short. This can be resolved with a touch of aluminum foil on the Positive end contact of the controller.
The below link is a great, quick 2 minute explanation of how this can be resolved (aside from buying different brand AA batteries) and is my source for the above information.
Hope this helps!