sort of an observation from my darkstorm post, but over all, humanity is seen as a raging mob, from the crazy humans beating machines to death in the streets to the humans in power
they do not appear to be a species that could make dark storm, zion, or even AI, they appear more like a species that if the machines where not there to take the beating, they would eventually wipe each other out
so in effect you really have two "humanities" you got the humans that have become drunk on their blood lust that they are blinded to everything but revenge, and you have a logical long term planning humanity
this would suggest that zero one is not just a machine city, but there are likely survivors of humanity living and working with the machines, who's genetic lines are not spawned by the pods, but decendants of the origonal humans
if you consider the first attempts at tricking the humans into thinking they are in the real world... how the hell does a machine know what human perception is? the first 2 matrixs were complete failures, imho the machines would have had thousands of failed matrixs before getting a stable system