Like your sugestion, certianly would like a tool to decide what craft caries what gun, and not only that it would be nice to do that with shields and engines plus deflectors.
also would point out a tool to set marks on your shuttle, like now you have to name them part from the ship, But I would like to sugest same registery code as the mothership but it can have a different name tag. Unless it's like the Delta Flyer build from scratch so its part from the ship.
Also colors and bridges would be apropiate to have finaly some function on it.
Or at least a bit more look a like to the series, they have the rights so why not build it.
And I know it has been named before on the forums but kits for your BOFF's would do great, in single player games each member has a kit some trek games even alow you to set up team mate ( BOFF ) weaponry.
Ship should have a storage locker or weapons room where all the weapons are stored so each mission you can choose the weapon you need for a pacific mission.
Also I think BOFF need the posibility to carry two sorts off waepons with them.
Ships also should have besides the weapon slots also topedo slots so you can carry different type off torpedo's.
Like having 6 phaser banks next to it two torpedo bays but also to make it intresting a marker like standard you can carry 2 type's of 100 torpedo later in the game as you progress and get a bigger ship you can buy bigger storage rooms up to let's say 4 x 250 torpedo's on your ship and when the torpedo's are gone there gone.
Gives the player to think about when useing a torpedo a bit strategy on your fighting skills.
Also what this game desperately can use is a simpeler skill system gut a few guys who are not good at the math and they fail there team mates all the time because they do not understand the english very well or they select wrong because they just don't know what there doing.
I bring this up because I heart Gekko say simplefy the system so everyone can play well it needs a lot off polisch and shine to simplefy this system, its far from simpel.
Well just think I set my points what are yours ???