the option to enchant on item while i have a 360 controller in is not there....also when i want to recharge a weapon i have to unplug the controller and im guessing it's not just those two things but thats all ive noticed is there any way to fix this

Download the latest driver for the controller. With it plugged in, do a windows update scan. Make sure you have selected the option to have other software updates besides windows updates

I once had a problem with the 360 controller in a game, and it turned out I had "enhance pointer precision" checked in the mouse options and it was totally messing with the game's ability to detect the controller at times.
I'm really guessing here, but wanted to share in case it might work for you.