No, it's been over who owns the story rights, and whether New Line was going to pay PJ what he thought he was owed for the last project.
New Line was incredibly stupid in trying to kill their golden goose by not giving it to PJ in the first place. How many multi-billion-dollar blockbusters, rated as among the best movies ever made, had Sam Rami done?
It's amazing how hard it is to convince studio execs to do a no-brainer.