This happens in a lot of games if you use the Xbox controller with Bluetooth. Infact it used to happen to me in every single game until I bought a Xbox One wireless dongle and used that for it instead. Seems more like a windows issue.Weird shit, I had a problem with the framerate dropping to 1-2 FPS every so often.
Turns out it was somehow related to using a wireless Xbox One controller and problems with either the battery or syncing.
Playing with the controller wired removed 99% of those, and now I'm getting solid 60-90 FPS most of the time.
I started thinking about it, and I think I had some similar issues with Origins a few years ago.