I've been considering a similar Research/Mission structure, where completing research on project A generates missions B, C or D, which then trigger additional missions. Research would be called instead Intelligence or Operations or Planning.
Yeah it provides some interesting opportunities!
Wow that's gonna be a load of work!!!
Thats very true
However, a lot is already done. I am currently working on the last endgame items, and the "research"-tree is pretty much completed. But still there is a lot to do when it comes to balancing, testing, sprites, strings, soundtracks, ++