I just played Storm Clouds Gather. As direct feedback I have to say your AI pathing is, honestly, atrocious. The BOFFs kept getting stuck in the ore area and when I would use commanded pathing they usually couldn't find a solution. I shows very badly on the operation. If I were administration, I would go out and find a very experienced pathing expert who can work with what you have as well as discuss what issues forward map designs are likely to create. As it is you still have not developed an effective way to address these issues. It is the main thing that makes me pause when I consider playing STO and helps me to play other games.
As feedback on the Gamma Quadrant mission set, wonderful story line and very well executed. Here I recommend buying dinner for those involved in the development of it. Very, very engaging and It is almost a shame its only six episodes.