yay! Who cares for defensive piratez? What's that even supposed to mean? Go (for) big (boom), go for the throat (with as fancy of a sword as you can find) or go home!
It looks like a pretty good design, and just enough runts to take advantage of the factory (350 + 100 for the conqueror = 450 of the factory?).
I would switch the power supply with either the barrack of vault, so that you are less likely to fight in it and getting it destroyed. Ideally, have something like what I attached.
Then yeah, fill the other two squares with a garrison, or more storage for a tank/dog/parrot/other HWP (cyberdiscs could be cool? great reaction fire on those) garrison.
Since the conqueror is "just" a craft, surely it can sit in any hangar? That means you don't need to keep its crew on the factory base, you can send it to your main base once it is ready? I guess if you want to go as soon as it is refuelled..