There is a mission to disable the nukes
Attack the base with a fighter jet.
Perform a strafing run with missiles and gunfire then barrel roll until the nuke passes you, rinse and repeat
Also when not using a vehicle never touch the ground, you will be obliterated. Stay up high in the air or find some solid overhead cover.
Deal with it (LOL) but all I did was use the grapple to avoid the nukes
You are attacking it to early wait until you got the mission to disable the nules