Almost sounds like your computer thinks it's behind your desktop, so clicking on things thinks you're clicking out of the game window. Are you running in Borderless Windows or Fullscreen? Try messing around with those settings (or even just trying normal Windowed mode) and see if that fixes it.
Desktop: i5-3570k @ 4.6GHz, RX 480 8GB, 32GB DDR3-1600, Win 10 Pro
Laptop: i7-4720HQ @ 2.6GHz, GTX970m 6GB, 16GB DDR3-1600, Win 10 Home
Currently Playing: Gravity Rush 2, GRIP, Guilty Gear Xrd -REVELATOR- | http://i.imgur.com/FuDx2Un.jpg