So, I'm fairly certain this is a user error, but I just haven't been able to get anywhere with it. In the mission where you have to destroy the NMF bases at 4th Orbit, some very stange things happen. First of all, after playing the mission several times, I notived that at some point, I become invulnerable. Also, there seemed to be an infinite number of fighters that would keep appearing as long as I was destroying them. I finally gave up at 57 kills and decided to head to the bases to see if I could take them out, since no one else seemed to be doing it. The bombers had quickly taken out the weapons system on complex 2 and 3, but I never noticed any of my cruisers jump in. So, at this point, the complexes are at anywhere from 98% to 100% health. I pick one and start blasting away at it. I empty my railgun, my missles, and am blasting away with both my light and heavy guns and it's hardly making a dent. It took several minutes of this to reduce the health by 2 or 3 %. Also, while I'm doing this, I'm able to ignore the bases and fighters that are just blasting the heck out of me, because I'm invulnerable.
So, like I said, this is probably a user error, but the mission parameters seemed really odd to me. Perhaps there is something I must do to call in my cruisers?