My layout of a capitol ship...

Ok so heres a couple ideas...

1. When ships are in the hangers they go really slow, sorta like when you run your jet into water it slows down until it stops and you die... It would sorta be like a gel was around your ship... Its tied in with the force field that protects the hangers, which is connected to the power generator outside the ships hull.

2. Each hanger has a blast door that can be destroyed with C4(equivalent) or opened by a panel on hte inside, the panel only opens it for about 12 seconds before it automatically shuts itself.  The door can also be destryoed from outside on the panel by destroying it or just opening it, these doors cant be repaired. So once the first door is blasted your other doors are vulnerable from the open hanger.

3. in back of the hangers is a hallway with the panels that leads to the bridge, teh bridge has all the turrets in it and the panel that controls the door for the escape pod bays. The turrets can be destroyed from outside on the ships hull or destroyed by entering the bridge and blowing them up at their own panels.

4. Each hanger is specified for a certain use, 1 for fighters, 1 for transports, and 1 for bombers (equivalent) so esentially if you get into a hanger and contol it you cut off the other teams flow of that kind of craft.

5. each hanger has 2 spawn points, but the spawn points can be destroyed by enemies. Represent them with teleports or soemthing like them... if the enemy gets into your hanger and destroys one of those spawn points you have to use another and walk to that hanger.

6. On the side of the ship are cannons that blast the other teams ship continuously, as opposed to missile silos, they are protected by the sheild generators, and are themselves very strong and hard to hit... and strong. They can be disabled on the bridge by destroying a main computer in the center.

7. Main computer, destroying the main computer sends the whole ship into crap mode, all the blast doors mal funtion and get destroyed/open up, including the super blast door shutting off the enemy from the ships core. It also kills all the turrets ability to function so they are destroyed too, the ship is rendered helpless except for the fighters, which are vulnerable without a force feild. The enemy ship has stopped being attacked by the cannons on your ship as yours continues you get pounded.

(super blast door cannot be destroyed using C4)

So at this point your team is put on mostly defense to protect your core.

8. just like the core in the BF2142 titan this starts the destruction of your entire ship, the team that destroyed the titan as well as the survivors has a little time to get to the escape pods and survive the blast.

So... these ideas are all sort of aimed at a titan mode... or ISD vrs Moc Cal Cruiser map...

My vision of how a game would play out,

first all the players you focus on destroying the enemies power generator, Then either attack the cannons on hte ships hull, or go in for the ships guts on foot.

Once inside the enemies hanger you would probably go for their spawn point, take it out with 2-3 sets of C4 and then focus on opening the door. Once the door is open go for the bridge or the other hangers, try to cripple the other team as much as you can while reinforcements arrive. Which ever you chose to go for first you will end up at the enemies bridge, try to take out the turret panels, or the super computer, which is behind another blast door (C4) Once you get to the super computer take it out with another bundle of C4, the ship goes to crap mode now, so your forces are pretty much flowing into this ship like ants without turrets the ship is helpless except for the pilots still defending the ship. So you go for the core now, once in the core C4 it too with a couple bundles 3-4... and you win, run for your life to the escape pods!

If you don't understand anything I will try to elaborate...

Feel free to expand upon the ideas, in my opinion that would be a perfect game to me.