i dont have this issue, However, I have had similar issues in the past with other games when I uses dualshock. there is a program called "DS4Windows", it has its own controller driver and emulates xbox360 input. This resolved many of my issues, both in and out of steam when useing the DS4 controller.

For me, however, where Steam was involved, I had to remove all of the desktop controls otherwise In some games, it attempts to emulate keyboard and mouse, rather than controller input. so i go into steam and debind all desktop controls.

I don't know if this will work for you, but its worth a shot.