"The article was poorly researched and lacks a cohesive argument."
That's a nice way of saying it. My own thought is someone's in the big publishing companies' pocket. There's absolutely no doubt they colluded with Apple to force the agency model and did it to enable them to raise ebook prices to try to save their print business. Officers of those companies wrote emails you don't have to be a lawyer to interpret saying exactly that.
It's actually a surprise that the government under Obama would file this suit. Amazon is a company that makes a lot of money doing things right and giving customers what they want. I'd expect Obama to try to make Amazon give most of its profits to rivals to be "fair."