Playing JAD 2.2 makes me wish that Wings of Dawn had a bigger team. Don't get me wrong, it's fun to play as it is. But just about every aspect of 2.2 managed to be awesome both as a parody and homage to the giant robot genre, interpreted through a fight sim. And hey, Macross isn't the only series that can play with space fighters. The "filler" shopping level and the boss fights in particular were awesome.
I don't know, maybe this is a stealth trap for all the ANIMU fans out there. But I think there's a lot of potential for a JAD 2.2. style campaign played straight, with plenty of humor and other staples of the genre as well.
Basically, split the series. Keep JAD and its crazy 4th wall breaking, and ship Holley and crew off to a series reboot where they have wacky adventures each week, pining after the attention of Alpha 1 and keeping Dem Shivans DOWN.