Most irritating thing to me is when choosing animations, the list changes. One time it contains the Barf emote, the next time it doesn't one time there are 5 Captured emotes (floating, hands up, etc.), the next time there is only one.
When choosing Ally, seems like friendly forces would be in that list, but most seem to be enemies.
Capes randomly appear and disappear when near the transporter in AE.
Once clicked to change costumes in AE and all my costumes were Superdine Labs.
When clicking on Advanced Goals in the mission creator, you sometimes get a popup that says 'Standard / Custom' even if the thing you are clicking doesn't have that option.
Be nice if all the character/pet lists were the same and all the animations list were the same (even if unusable ones were grayed out).
The placement Front/Mid/Back often doesn't work. I had a destructible object set back (it was the goal of the whole mish) and it was inside the front door. Mid in particular often doesn't work.
Would be nice to be able to place more accurately in the map and to be able to specify particular enemies and numbers at least once in a map. i.e. Werewolf mishes with mobs of werewolves only and robot mishes with robots only, etc.