This is a super loaded issue, especially after this update. I also saw a report that he's intending to dissolve the CBA because the CBA has a clause whereby collusion from the owners would result in the CBA's invalidation. I don't know what that would entail, like perhaps a lockout midseason or something where the season is cancelled or postponed (@Superman you might be able to fill in the details here). I'm also unsure how many owners have to be involved for this clause to come into effect, whether it simply requires 2 owners colluding, or if there must be a 2/3rds things going on like when they vote for new rules.
That could also have the support of the players who seem to be generally unhappy with how much power Goodell has and might want to renegotiate the CBA sooner rather than it's actual expiry date (which I think is 2020). It would be interesting to see how the players contribute, whether intentionally or unintentionally (eg. I believe it was Brandon Weeden who recently came out and said players in the league believe Kaep is good enough to be playing in the NFL).
While I am on Kaep's side of this, I think it's too easy for the owners to simply say it's a football decision. Once Harbaugh left San Fran, his play took a nosedive. Look at the film and you generally see a guy who is very raw, has trouble reading defenses, and has accuracy issues. Sure, the protests and the attention that come with them is a factor, but I think the owners could (easily) argue that this is a football decision.
Either way, this could get even deeper and messier than it already was.