As far as I know any particular formation of ships doesn't affect how autonomous your AI partners are. The deciding factor for that lies in the firing orders. The first option "Fire at will." gives your fleet total individual control--that is, each ship will do its own thing. The second option causes your AI fleet to focus and fire at whichever target you are currently locked onto. The third option is to completely control weapons fire yourself by using the red button next to the firing orders. When it's lighted that particular ship has one or more weapons ready to fire.
Personally I always stick with having allied AI locking onto my target. Allowing them to fire at will means they'll eventually wind up far away from you exposing you and the AI to risk. If they're locked on your target they'll stay reasonably close most of the time. The third option will keep your fleet much closer to you but it's very tough to judge from your command bridge just what weapons are available and in what quantity on the other starships.
Anyway, that's my opinion. Play around with things and see what happens. Sometimes you may be pleasantly surprised.