Where ships launch nukes / missiles at each other but you can intercept them with Point defense and fighters.
think the Idea is to have something like Nexus I remember Nuke launch and sending every single fighter to intercept it
I was searching youtube for a good example 
think the issue is the Missiles (as fighters) will just orbit the friendly ship when not in combat and look silly.
Unless you can find some way of launching fighters only in combat.
Perhaps with Antimatter limitations.
Could have your Capital ship only have 200 Antimatter, and the cost of launching a fighter is 300 but they build instantly, then have a targeted ability that needs an Enemy which also increases your maximum antimatter by 100.
this would... "launch" a Missile which would immediately attack your target and fly to 100 range to Explode.
Could make it do 2000 damage to all in a huge AOE on impact(this could also be used to kill the fighter/missile), just have to make it slow enough for players to Respond and intercept it with there own fighters/PD to avoid the booom.
You could give the squad(missile) a second ability that Either deals a constant 1 damage a second, or Kills the fighter after 20 seconds to Mimic Fuel / flight time, so you won't end up with a load of missiles stacked up
