I suspect that the main reason why he was kept in jail as a child was to shield him from those nosy scientists, who would surely have done some unpleasant things to him. As an adult, though? The scientists would be afraid to mess with him, honestly, for the same reasons that the batillion of cops drop their weapons in the movie when Megz orders them to "Drop 'em!" He's got all these weapons and no one really knows what they are capable of, and damn if he will back down from a fight. I suspect that at some point he's kicked some serious ass in battles with the police just because he could, with or without high-tech weaponry, and they've figured the best course is not to antagonize him but let Mets deal with him. In my head-canon, and in at least one fanfic I've read(sorry if I forgot who wrote it, so don't take it personally), the government would be more interested in cultivating a working partnership with the super-genius inventor so he can develop ultra high-tech weapons for THEM. In other words, Megamind's creative genius would be of far greater benefit to the Powers-That-Be if he was alive than whatever they'd learn from physically dissecting HIM, which I suspect would probably be very disappointing from a biological perspective. Other than his more highly-developed brain, I doubt they'd find anything worth writing home about if they did that. I don't even think his DNA shows anything earth-shattering(no pun intended) or out-of-the-ordinary as compared to human DNA, otherwise there probably would be at least a bit more interest in him from the scientific community, since surely Megz's DNA is on file in CODIS given his extensive criminal rapsheet. I also agree about the disease thing; either Megamind is not succeptible to human diseases at all, OR his immune system is just like ours, and he gets the same illnesses we do, reacts the same way, and gets over them the same way. Prisons are excellent places for diseases like influenza to get a good foothold, with all those people kept inside in close proximity to one another, after all. More than once our state prison has had to close its doors to all outside visitors due to severe outbreaks of flu inside its walls, so if Megamind was likely to become more seriously ill from exposure to something like the cold or flu than we normally are, he'd never have survived his childhood in the prison. He definitely would have been exposed to a lot of nasty "bugs" while there. He also would have HAD to have received routine vaccinations while a child to get into the school, since Federal law requires any child entering a public or private school to have had certain vaccinations. If he was overly prone to catching human diseases and dying from them, the vaccines would have killed him, since they are usually made from weakened strains of the very diseases they're meant to immunize against.
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