Nice to see I'm not alone with this issue as well.
As far as I've tested, whenever we press the A,B,X,Y,R1,L1 buttons they don't register the releases.
I've tried many different things, such as changing the keyboard layout for the controllers, and even making my own. Not successful though.
Well, I've managed to "bypass" this problem by configuring the gamepad keys on the games (the ones that we can configure, of course) to don't use these buttons I listed.
I changed the A,B,X,Y to the right analog stick, and the R1,L1 buttons to the R2,L2 Triggers (which are analogic).
Then the controller may work flawlessly.