And another one. Again on my second playthrough with capital ships only on a huge 5 star system map.
Moved my fleet, (one titan, 3 kol, 3 dreadnaughts, 2 duncov, 1 corsev, 1 akkon) into a new system. It was a moon system once I destroyed everything and was ready to move out I noticed 2 of my ships. ( a Kol and Dreadnaught) had disappeared. They still listed as active and their fighter craft still existed. But the ships themselves had just left.
I moved my main fleet to the next planet system. and tried to focus on those two ships it would just take me to an empty piece of space. No matter how mush i would zoom in or out no stars and planets would appear. Also the ships themselves were not present in this area. Maybe the ships no-clipped their way out of the map??.
Also I assume the fighters they were carrying had docked with them since i could not move them. I did destroy them and rebuild them but they did not reaper on the map.