With a flash of inspiration, I took control of a couple of flyers sitting in the docking bay. I sent them toward the missiles at full acceleration. Flyers were not military vehicles or flying explosives, so they really had no chance of catching or even intercepting an approaching missile. But they did have the effect of splitting the attention of the missile AMIs. It was just enough to slow down the dodging, and the defensive turrets blew both missiles out of the air.