I'm still not entirely convinced that MoaD taking over isn't better than JC with Anita as his attack dog.

Yeah, it's been stated that the MOAD now is really just concerned with her own dominance and survival, like an animal, even if in the past she had a human mind, goals, agendas, etc (such as puppeteering the Council).

JC? Has all kinds of agendas, and he'll use a mass rapist to achieve them.