This build adds an error dialog that shows when your persistence/achievements/settings file wasn't loaded correctly. Right now I have a pretty basic saving/loading system which doesn't have backups, so if you encounter this issue, I'm afraid your progress will be lost completely.
There's an Unlock All button in Settings > Persistence which unlocks everything in the game, so you can jump back to where you were & carry on. Kind of.
(For settings, it'll just reset everything to defaults. You'll probably see the window flicker when in the splash screen when this occurs)