I can't tell from the descriptions of the adventure modules trilogy, but...is the Mongoose Wars material leading up to some Big Reveal? Michael Stackpole hinted at something concerning the Shi in his stories, and M. Tuttle also set up a mystery with his Quandom Falx story.
There were three things I was shooting for with teh Quandom Falx story.
1) It tied into the storyline of the never released Edge of a Sword expansion. The Accord (under the direction of a Dooley) stage a heist at a museum on Seyal of priceless Shi relics. The relics are alien artifacts collected from a thousand years of conquest. The Quandom Falx was one the key pieces. It was a weapon that would make a kizen (although they didn't realize the connection) almost unbeatable in battle.
2) There was so much storyline behind EoaS that I wanted to establish a little piece of the overall story with most of the revealed cards. Sadly, that wasn't to be as I got moved onto other projects upon the cancellation of the card set.
3) The Quandom Falx story was also an early piece in a greater arc that I was fleshing out about the Shi. Some folks on the D messageboards started to figure it out when they realized that the name had roots in ancient Earth languages. The underlying question in the overall arc was "why did the Shi end up in our solar system? Was it an accident?"
I just want to say that I'm a huge fan of this property and I love what Mongoose did with all of the work we gave them when I was at D. I would certainly love to finish writing some of the pieces I had in the works but it would of course only be "fan fiction" and even then, I might have to get permission from my new employer. I'm really interested to see what this campaign is that you guys are putting together.