I liked your posts in those threads, but I don't really fully agree with them. I'm not sure how much of the existing setup can be put on transfloration institute workers and even bosses, considering that they have to work as a part of a bigger society and government system, and in times of crisis with threat of extinction over them making victimizing some people almost a necessity for survival (it's hard to imagine transfloration working on only willing sacrifices without system turning abusive), and with little power to or knowledge of easy way to change the society for better.
I was born in a People's Republic, and while it was system forced on us by USSR, with Red Army as its guarantor and guardian, and while not as dystopian as in this story, still a cruel system which even in later times has tortured and executed at least some opposition activists, and sent uniformed thugs armed with guns to brutally squash protests. It was still normal for people to work for this system, and while people often disliked and mocked the police, (sorry, militia, police was for capitalists), especially
ZOMO, they also often treated policemen as something necessary for holding peace and protecting against crimes. Same with other jobs that were part of the oppressive machine of Party - we had to keep country running somehow, so it was a bit shameful, some people were more principled and proud and were getting severe handicaps for that, most weren't, some were trying to be as much of opposition as it was kinda allowed - or sometimes more and suffered for it - but I don't think it was treated seen as automatically evil if you were part of the Party machine.
What I want to say is that while I think kid was definitely innocent victim of the system, and that "bad guys" certainly have some good criticisms, even if it's also true that main opposition guy was to some degree a hypocrite in the recent discussion with Yomiko (we can't sacrifice innocent people - until I do it, then it's necessary), I don't think we can call Transfloration Institute folks necessarily evil. We don;t know if they have anything to do with creating the ghetto in the first place, or with how it's run by cruel gangsters - it seems like government policy, and security forces' job, which they explicitly aren't part of, and the fact that rich people in the city buy human furniture and probably support the existing system can be simply something Institute is unable to change on its own. They know they have to transflorate people for humanity to survive, at least by now, and they aren't part of the government proper, they can't decide or change how "willing sacrifices" are chosen. It was also implied that opposition severely oversells the paths to stop relying on transfloration as part of their PR, and MC's side knows that. Only geniuses like Kudai and unknown person can find better way, and they're hiding from Central.
I'd put as most evil people the Central, the government for allowing the ghetto to be created the way it was and for sending people there (probably part of the Central anyway), the thugs running the Austercity for oppressing its people, and I'd add rich people for buying unnecessary luxury items created from oppression and creating market for it (just like blood diamonds).