There's some awesome targetting features that would make the game a lot more badass, maybe at the price of unbalancing. FS weapons do have untapped potential in my opinion.
Target multiple targets with a combine target feature. It'd be sort of like using target ship in reticle, hold down shift and push the target ship in reticle button again and again to do something like targetting a wing of fighters with each fighter targetted individually. Would be great to do with missiles and bombs. The hornet and tornado launches 4 missiles. So like target a wing of fighters by targetting them individually, and send one tornado to each fighter in the wing to harass and break them out of formation. Combine this with the ability to launch double missile or bomb payloads at one time which already exists in the game, and do something like target multiple subsystems on a capital ship and launch two bombs to do something cool like take out two beam cannons. Target even more subsystems on like a fenris and attack four or more subsystems and turrets on a fenris by launching 4 or 8 tornado missiles at one time repeatedly until stuff is destroyed.
Set a vector for your weapons to follow along the hull of a ship. This isn't very handy unless your flying a capship with slashers, or a fighter with slashers (beam slashers). Basically it'd be a way to get your slashers to follow a designated vector from point A to point B (it'd be a great system to keep your slasher from mostly firing off into the void of space) . You'd just target your capship, set a starting point for your beam, and an ending point. The slasher would follow it from point A in a straight line until it hits point B. In which when it hits point B, the slasher powers down. And you could do other cool stuff like assigning only one firing point for your slasher just by assigning only one vector point for the slasher to follow, effectively turning the slasher into a normal fixed point beam. Be great for causing capital ship wide abuse, and or focusing your beam on a fixed target like a subsystem or turret. I was imagining this feature to be sort of like mspaint's line tool (in which you can make lines by assigning a beginning and an end point, and also that if you just make a beginning point then you just end up with a dot).
Assign turret attack priorities. Should you happen to be flying a fighter or bomber that has a turret, or a capital ship with multiple different kinds of turrets. Being able to assign different attack priorities based on different kinds of threats may be handy for keeping fighters off your ass while persuing a target. And if flying a capital ship, be able to assign different attack priorities based on the weaponry (have a different attack priority for flak, blobs, etc...even beams). This feature would only be handy if you yourself were flying a capital ship or a fighter or bomber with a turret.