ProgMatinee
circlesendwheretheybegin
Honestly, I think there's more going on with River. We never actually found out what they were doing at the Academy other than brain surgery, we don't know what their purpose was. Plus, there are other people besides River that were in the Academy, what about them?
As far as River as pilot--remember that it wasn't the knowledge of Miranda that made her act crazy, it was that parts of her brain were removed. I don't think I'd want a crazy person as pilot.
I agree there is still some exposition to play out with River and the Academy, but I don't see basing the plot of a second film on River again since that focused so heavily in the first film and seemed to have been pretty neatly wrapped in the end. I think at some point had Firefly continued you would have seen River become a relatively functional crew member otherwise you're basically limited in story telling to "River's acting crazy again..." plots involving her character. You can still keep that edge to the character but make her functional and it frees the plot to focus on Mal.
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