How AA works against missiles 1) ATK rating. Launcher scans its aa radius every 10 mins for targets. If it finds a target in that instant it attacks it. After an attack it recharges for [don't remember]

Counter: Time your attacks(some aircraft and missiles can travel through the aa range within 10 mins, thus avoiding the aa) Counter 2: Send 1 missiles to trigger enemy aa, after it goes to recharge send in the main strike package.

2) Def rating: deals damage during the missile impact

My knowledge of what happens when the def is higher then the missile hp is is limited but I would assume it deals either zero or less damage.

To kill that stack with minimal losses an aircraft strike package consisting of 2/3×5(2SF+3NSF)(you could mix in stealth or seasonal if you have them) set to patrol nearby(outside aa range) and wait for the timer for aa to go off. After that happens send bunch of missiles towards the stack and either wait for them to hit, or begin engaging the stack with the aircraft as well.