[Captain Kwok]

Hmm, I think you'll need to restart the game at the point before the destroyed the starbase if you want that mission to succeed (if possible), however, you might just want to go on to the next mission if you haven't screwed up too many and if the game lets you (i.e. time limit for your the starbase mission?)

You should report this "issue" to Aaron, so at least the game could give you a mission complete or come up with some alternative mission instead.