I had the same problem with Borderlands 2 using the Xbox One controller. I may have found a solution.
This morning, I tried switching from USB 3 to USB 2, and the game went past the 2K logo. My computer didn't freeze. The game ran fine with the controller. Mirror's Edge also suffered from this problem, but it, too, ran fine after switching USB port.
But now there's new problem (or maybe the same problem, just not as bad). Right after the 2K logo comes the Gearbox logo, and I noticed my FPS falling hard at some point past the end of that logo. Then the Nvidia logo. It will either play really poorly (between 0.1 - 1 fps) or it will pause and lag up my whole computer. I had to terminate the process through task manager. I have repeated...