I started a run on the surface and got all the way to the second boss, and then the game crashed when there was just a third of the boss' health left. I had to shut off my computer. When I booted the game back up, not only had it not been autosaving my progress, but it left me on my last save which was right before I started the run!
Before this happened the game crashed during a playable flashback cutscene right after I died to Chronos, and I was able to carry on from the beginning of the cutscene right after I rebooted the game.
Please make sure autosaves are still saved even after a crash so I can play the game without having to quit every time I complete an encounter just to make sure everything is okay in the event of a crash.