There are perfectly good engineering solutions to all of the points you've raised which I won't go into here, because I don't want to waste your time or mine. I'll just state that Biosphere 2 was a terrible experiment that in no way reflects the proper way to do a mission of that sort. Additionally, there are myriad ways of generating resources in-situ, especially with using the Martian atmosphere.

The point is that I'm not talking about a society a year or even a decade into a mission. Once the groundwork is laid, though, the possibilities emerge. The colonies didn't revolt until 169 years after Jamestown was founded. I'll finish by saying that your pessimism is unfounded, as very smart people have figured out solutions to most of the problems you have presented. Furthermore, just because you personally do not find such a situation to your liking doesn't mean that others feel the same way.