I've had similar issues. In one match, two of the four spawns bugged when the Romulan ships vanished during the middle of fights with their respective Tholian packs, leaving just the icon floating over the asteroid. A third spawn bugged out and failed to respawn after being successfully cleared.
There are times when none of the Republic ships spawn, there are times when ships stops spawning after rescue, and there are multiple map bugs that lets players free ships uncontested.
This map needs to be put back in the mixer and thoroughly shaken.
Scimatars the the best, not just for the high points, but because its also the easiest. 1 Tarantala Dreadnaught as a defense. I hit it with Engery Siphon, Tractor Beam, and Feedback Pulse, and fighters, then torp high yield Transphasics, cannon rapid fire plus DEM and Emergancy Power to weapons and transphasic mines. Its doesn't stand a chance. Quick and super easy.