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I think that season 3 and subsequent seasons of Firefly would have explored the Hands of Blue guys in more and creepier detail. We definitively learn what was done to River and why in Serenity, but the HoB are not explained in the movie nor is the exact role the Blue Sun Corp plays in experimenting on River. It's been awhile since I saw the movie so y'all correct me, but the gov takes River, right? I've always thought a whole mess of people with competing agendas were involved in that project. I think we'd have probably eventually met other people who'd been experimented on. I also think we'd have seen a whole lot more of the Reavers and explored various lore about them leading up to the final season about Miranda.
I think that Zoe and Wash would have decided to have a baby but I think Joss probably would have chickened out and made one or the other of them unable to have kids (prob Zoe due to a war wound).
I think we would have learned something about Book's past even if it just led to more questions. IDK what I think his back story is. I think it would be interesting if he was some sort of former military but that seems too easy. I don't know what he could be beyond the obvious. I keep trying to think of possibilities but they ultimately don't make much logical sense. I like the idea of him a political figure, for example, but he can't have been anyone too high profile or he'd be recognized. I also like to think that he went into the ministry as a young adult, possibly for his own protection--the son of someone important? IDK
I know they revealed that Inara is supposed to be dying so I guess we would have learned more about that. I know that there has to be something more than meets the eye to her, a reason for a Companion to be gadding about the raggedy edge, but I don't know if I like terminal illness being the big secret. If she is sick I want her to stay sick with no magical cures although it's difficult for me to imagine what kind of illness can thumb its nose at Cortex medicine.
I think we would have seen more of the same from our remaining crew. I think the Simon/Kaylee UST would have dragged on for quite awhile without resolution. I think Mal would have changed very little; he's the most static character on the show. And I think Jayne would continue to provide comic relief and moments of surprising pathos.
What do y'all think?