USB controller stops working after a few seconds with Star Fox 64

[KneegrowJesus]

I have an Xbox 360 USB controller. I've set up which button on the Xbox controller corresponds to which button on the N64. I started up Star Fox 64. I skipped through the intro and started the game. I mashed the A button, until when General Pepper tells you "It's about time you've showed up, Fox! You're the only hope for our world!" At this point, the controller is completely unresponsive. I've tried different ROMs of Star Fox 64, and they all do the same thing. I tried the 2.0 version and the 2.1 version and they both do the same thing.