The single save that carries over into different playthoughs doesn't bother me so much.
It's really fucking annoying that they hide the save files. I ran the game sandboxed, but it still was able to save files somewhere and they're not where the wiki says they should be. A program that throws files in hard to find places annoys me. And it also annoys me when indie games crash on purpose.
It's bad programming etiquette. But it's some shitty musician's 'artistic fourth wall breaking', so whatever.