I found an odd bug whereby the texture of ships goes transparent, leaving you unable to find or see your ships on the map.
Specifically, when you send a ship into a square with another ship in it, and the ships are not in a fleet yet, sometimes the resultant image on the map is blank. See Before and After screen shot for easier clarification.
I guess that has to do with their new way of stacking ships/fleets, it seems there's still a few issues with it.