Thanks very much everyone.

I'm not going to touch the engines anymore. I like them in their odd high up position.
But take back what I said about no fighter bay.



(Sorry these don't look as nice, I just screenshoted Wings3D instead of giving them a full render)
Its not completely done yet, I still must add detail to the doors and hangar.
It'll use Bob's Animation code to swing the doors open when something wants to leave the fighter bay. The piers up there will be enough for small transports to dock with. And the front of the hangar is sloped so fighters won't have to do a real sharp dive.