I'm guessing that's probably exactly what happened. And then they blackballed her from ABC and CBS pilots (http://www.deadline.com/2011/02/paget-brewster-tests-sitcom-waters-as-fate-of-some-criminal-minds-actors-is-uncertain/) which severely limited her choices.

And the thing is, CBS looks like they ~learned from their mistakes~ if Paget hadn't said anything. But Paget doesn't screw around, and she tells things how they are, so it's just another example of the women on this show getting screwed with.