I've had a controller problem since back in beta like this that hasn't been fixed. I've had it with a PS2 controller (with USB adapter) and with a Logitech F710 on Windows 7 and Windows 8.1. It only happens once each time I start up the game, but usually within 15 to 30 minutes of starting, I'll have a period of 20 seconds or so where the controller quits responding. So if I wasn't doing anything when it happened, I just have to wait until it starts reading input again. But if I happened to be running or moving the camera, that action will continue as if I were still holding the button down.

My old Coil group thought I was trolling them when we would get in T4 or T5 and I would start running uncontrollably, but luckily it's never made me run off the side on Titan or anything. I just make sure not to sign up for dungeon runs for the first few minutes after logging in and that's worked for me (not a perfect solution, I know...). For what it's worth, I use Xbox drivers.