Ah, don't worry about it. I get what you're saying. And I agree - it is disconnected from the rest of the game. But... well, what would you do instead?
The way I see it, either you'd have to change stuff in other parts of the game, or rewrite M4-78 to have an entirely different origin from the one presented in what little was left in the game files. You could argue maybe one of those things should have been done instead, but in any case, both were beyond the scope of this mod in particular. Even though it was not a restoration in practice, because there wasn't much left to restore, it was meant to be a restoration in spirit - so that meant not directly contradicting anything that was left over, or messing about with other parts of the game (apart from Vash's death on Korriban, obviously). And for better or worse, what was left implied it was a relatively insignificant planet, disconnected from the rest of the galaxy. So that's what we got.
But regarding your other point, about not having a big choice to make... well, we started reminiscing about some ideas we had that didn't make it in, and it led to this topic here.