I was playing as the Altarians. My mining ship had just finished building up the last asteroid, and auto was disabled for it. I upgraded it to a constructor, while it was still in the field, and it got stuck- wouldn't move anywhere. Saving and reloading, and even rebooting had no effect. It was there for good. This is reproducible; I started a new game to make sure.
This isn't a gamestopper, but it is annoying to lose a ship that way.