Well got stuck in my first glitch of the game. I really hate it when you get nabbed by a bug and your checkpoint is a fair bit back...you have no idea if you'll escape the glitch the second, third or fourth time
After you scan the biomass in the alien pod you're to escape through a window and get a cutscene, but I went into cutscene mode (no weapons) before I got through the window and then couldn't go through the window no matter how I tried. Known glitch.
I had that issue. The one that surprised me the most was when I was body slammed by an alien into a water logged area and I was literally swimming beneath the level itself unable to break the surface.