Most likely, the author intended for players to only play on this map, and the rest are side effects. Delete the map, and everything will be fine, or start playing again. I didn't delete it, so I still have the issue in the last mission for the Academy, where Erly's birds are replaced by something else, due to one of my edits in the editor.
Hmm... I need to try to remember on which map I first saw this.