In Season 1 there were strong implications of a connection between Massive Dyanamic (Bell and Nina), and the Pattern/ZFT (David Robert Jones). Nina pretty heavily denied them and there always was a layer of plausible deniability.
But with the revelation of Nina pulling Jones's strings thru the typewriter, how does this recast Nina, and Bell's role in ZFT? Both of them were focused on defending "Over Here" universe from the other universe. ZFT was Walter's playbook of how to defend against the other universe, sans the morals bit. And it is shown that Nina is knowingly involved with experiments on children along the lines of the cortexiphan trials into season 2(Of human Action).
Does this mean in Season 1 Nina was as involved with ZFT as she is in Season 4? If so, how did she hinder the Fringe team in fighting ZFT? And was Jones's attack on her staged or does it indicate that Nina was moving away from supporting ZFT and moved towards the Fringe team?