In multiplayer, my buildings that need to be upgraded will suddenly queue up to have multiple upgrades done to the same building.
For example, if I have a basic factory, autoupgrade will try to upgrade the building to a xenofactory 3 times. The entry xenofactory shows in the queue 3 times. When the first one is done, the building now is a xenofactory, but it will upgrade it again (wasting my manufacturing points in the effort) to a xenofactory 2 more times unless I manually cancel the redundant entries.
I have not seen this bug in single player game.
More details - only I was getting the bug. The other 2 players did not get this bug. I was host and playing as Krynn.