I was wondering if the plan might have been to have N be king during the skipped two-parter, but have him leave Plasma by the time the Team Plasma arc rolled around. The flashback episode of Episode N establishes that Reshiram interrupted N's coronation so he didn't really become King, but I guess that's a minor enough detail.
Now say we got dual third versions (Light Grey and Dark Grey or something like that) as originally planned instead of sequels. Even if Team Plasma in the games weren't openly evil and still used the facade of liberation, I could totally see Team Plasma in their TV series arc being openly evil just as they are now because it would better suit the writers' plot. I digress.
From the skipped 2-parter we saw what I believe was Plasma Grunts in disguise at some kind of social function, I wonder what was up with that.