Thomas has a strong point. The NFL attacks the franchise, ensures it's not competing on a level playing field for the foreseable future which pisses off an entire fan base with the only real risk being a loss of a large portion of those very fans and the revenue they provide to the league.
Instead of facing a fan backlash resulting in damage to the bottom line, the Patriots, and by extension, the league, are more popular with New England fans than ever and the money continues to roll in.
Goodell got it all. A damaged Patriots franchise holding them to means of parity which exist outside the rules the rest of the league follows, thrilling his bosses and the fans of other teams, a big win for his ego, and no adverse effect to the bottom line which is the only criteria he cares about.
Goodell doesn't care that Pats fans despise him nor does he care that Bob Kraft lost his reputation within the league as well as the love and respect of his team's fans and is now almost universally an object of scorn.
Why wouldn't Goodell be thrilled?