On several occasions I've had the current autosave randomly disappear on me. I'll load a different savegame, decide to exit out of it for whatever reason, and then when I go back to the load screen the autosave is gone. Not overwritten mind you, which would be normal, but GONE. There is no autosave listed at all.
Having that same issue here too. Windows 7 64-bit, Vanilla+ROtDG+YHtNtEP+CotW. Autosaves randomly vanish, and sometimes appear to be older than the current 'main' save despite being higher (=more recent) in the list of saves.
This may describe what's going on, pulled from the IRC: Code: [16:27] <@gaslamp_nvining> rydash: We nuke autosaves when we load old save games. [16:27] <@gaslamp_nvining> This is actually deliberate. [16:27] <@gaslamp_nvining> And has to do with some of the fun of trying to optimize things for the dynamic loading stuff. Savegame paranoia is probably causing this to be noticed at a higher rate, and this is the likely cause. However, I am not saying this is the only cause, so keep an eye on it.
The catch is the autosave is sometimes vanishing /before/ you load the save game. Log out, check 'Load game' - has both save and autosave. Close Dredmor, come back later - autosave gone.