Expanded details:
If you try to cut an object while something is selected, *while* you are currently selecting a hidden layer, you will delete the contents of that layer instead. FUTHERMORE, if you try to undo, that layer is now forever broken and can never come back. after undoing, it always seems to have a sort of square chunk removed from what was originally supposed to be there.
Simplified Steps:
Draw [thing]
Duplicate the layer of [thing]
Hide duplicate layer
Select something in duplicated layer
Cut, with layer of duplicated thing hidden
Undo
I can't seem to reproduce this bug every time However, though I have encountered it three times now. Things seem to change based on when I have closed or open any/certain other canvases. Hard to say.