A simple bug I think. I was making a two part building with a door in between. I accidentally build floor and ceiling over the door tile which erased the both door and the materials used in it. After deconstructing the floor tile there were no signs of the door at all. It seems the same can be done with any door.
However, I'm not running a strictly vanilla game so can someone test if this is the case in that as well?
Cheers!