Each civilization having its own unique super capital ship which would be the best ship chassis you could build in the game, these ships would be extremely powerful in armor ,shields,engines and weapons and also have numerous special abilities(chassis class related) race related perhaps?, but due to say uh technical difficulties and cost, each civiliztion could only field 1 super capital at a time.
Having one of these may also have diplomatic effects, other races might want to ally with you, and normally hostile races might become a little more passive?
Maybe also make it that such ships can only be built at your homeworld.
Might not want to make it indestructible, just plainly hard to kill. EG. it might take a entire fleet of battleships to knock this bad boy out of the sky with one badly damaged battleship surviving
Since GC2 is going to have custom races and playable alien races, maybe the special abilities might be chosen at customisation screen
Just a thought.