I really appreciate you taking the time to show me all of these bugs, especially with screenshots so I know exactly what the problem is!
I'll be investigating what's causing a lot of these problems, but I have a feeling a couple of the alignment issues are due to the full-screen option with clickteam fusion being a tad buggy. If that's the case, I can try to find a way to make the game more full-screen friendly. In the meantime, exiting fullscreen to view what's been cut off then returning to full-screen might make things a bit more enjoyable. :)