Conviction or no, Bauer is clearly trouble. And furthermore, the nature of his violent misconduct, coming in an initially consensual sexual relationship, is one of the many flavors of sexual misconduct that our criminal justice system is simply never going to charge and convict. But that leaves us in a situation in which our appropriate moral indignation rightly holds people to a much stricter standard than our tragically inept justice system, which (here as elsewhere) is content to uphold social hierarchies and leave, by some survey-based estimates, 95% of intimate partner violence uncharged.
So if you are an organization like, say, MLB, who understandably doesn't want someone whom the public sees (quite probably correctly) as an unrepentant sexual predator as the ace of one of your flagship franchises, what are you to do about this sort of accusation? One option would be to defer to the legal system, on the understandable justification that you aren't really equipped to come to these kinds of determinations. But... the legal system also isn't equipped to come to these kinds of determinations, as their track record amply demonstrates. Another option would be to set up the kinds of ad hoc "courts" that many college and university campuses have adopted as they also flail around in the void of effective enforcement left by our criminal justice system. That is... another poor option, one that has gone really badly for colleges and universities while also failing to stop sexual misconduct on campus.
I guess I'd probably do more or less what they've in fact done: you hash out with the union a policy for imposing suspensions in cases of credible accusations. And most of the accusations are bad, but not this bad, so people accept whatever suspensions the policy allows as appropriate to a first approximation and everyone can move on. And most of the players are fungible enough that players who do something terrible wash out and cease being the league's problem. The system buckles, however, when the accusations are really vividly bad, as they are here, *and* the courts don't respond adequately, as they so rarely do, *and* the player is good enough on-field that unscrupulous front offices might be tempted to accept the blowback for some good starting pitching. That's tough, because the league should really not be trying to coordinate retribution against a player (even if deserved) in excess of the collectively bargained process. So I guess the league just has to hold its breath and hope no team does something shortsighted here.