I have both a standard Xbox One and Xbox One Elite controller.
However, after updating to v1607 of Windows 10 Pro I've noticed that a number of games, which previously were working fine, are now not working properly with the Xbox One Elite controller. These include both Marvel Ultimate Alliance games, Beyond Eyes and INSIDE.
The weird thing about the two MUA games is that it WAS broken at launch with non-functional and mismatched buttons (RT didn't work, A was X, X was Y, etc) then 1.2 and 2 GB patches fixed all the issues and I was able to play the game just fine as intended. However, now in the Anniversary update of Windows it is back to how it was before it was patched which is weird.
I loaded the Xbox Accessories app and it showed that I had the latest firmware installed (something ending v2.3.2388.0). The issues occur whether used wirelessly (using the adaptor) or wired.
So I checked the firmware on my standard Xbox One pad and it had v2.3.2381.0, again the latest version with the build differences no doubt being due to it not being an Elite controller.
Anyway, I just loaded up Marvel Ultimate Alliance, which remember is now broken with my Elite controller, and was rather surprised that I was able to skip the logos using A on the standard Xbox One controller! Seems that the standard Xbox One controller works absolutely fine in Windows Anniversary v1607 but the Elite controller doesn't.When I checked the controller menu in the game it shows an Xbox One controller for both the Elite and Standard controller but only the latter works properly in the game.
Bearing in mind, that both controllers are presumably using the SAME driver and I was testing both wirelessly this issue leaves me completely baffled. Maybe the Elite controller needs an updated firmware? At least I know I can use the standard controller for affected games but that is not ideal when I paid £120 for the Elite controller and prefer to that for games!