From what i understood of the ending of SO, confed had captured the "stargate"
and was analysing it. in my thoughts they were setting up a new story to create a very simple mission plot:
-the confederation saves the entire universe all by itself, by sending a strike force,
with the flagship midway(with a working plasma weapon, and the cerberus, and
several other task forces through the gate(s)(ofcource other fleets will be present, but you will only hear about them) and within two or three sequels
hammer on the bugs until they surrender or are exterminated
ofcource, casey will fly off the midway.. and the cats and the border worlds will assist(they probably forgot the firekkans ever were in the game anyway)
the idea of a bugified blair remains very eighties, i would admire the writer who could make that issue not appear incredibly stupid.
it would make a nice and simple plot, and i would not mind the simple "fly there and kill everything we know of and other things you encounter, and we will tell you you have helped humanity and saved us all after 50 missions"
also, as for the tri system being the remains of confed, is too much a battlestar
galactica-yes we used to travel across space but we forgot how everything
worked- for today, or for ten years ago. (battlefield earth was no succes!!)