I'm not sure whether I should post this here or the bug tracker, since I can't seem to find anyone else with the problem. Maybe it's something I did, I'm not sure. Anyway, on terror missions, there are certain buildings where my troops can just phase and shoot through walls like they were nothing. Also, certain single-block doors won't open, and I can't climb ladders. The only modifications I made to the game were changing the music and sound effects, as well as adding new soldier names. I posted the save file down below. Have fun phasing through walls!