He's on administrative leave right now and is still drawing a pay check. There's a good chance that a lot of us would find ourselves out of a job if we failed to show up for work one morning and it came out it was because we'd been arrested the night before on charges of domestic violence.
Also, I don't find it problematic in the least that baseball can punish a player before they're convicted. First, the players association was an active participant in crafting the domestic violence policy. This wasn't something shoved down their throats. They were part of creating the policy. More importantly, players are quick to remind you that this is an entertainment industry in justifying their massive contracts. As an entertainment industry, good will from the fans is the most valuable commodity there is for both owners and players. Having a policy like this allows baseball to quickly deal with domestic violence issues that might damage that good will benefiting players and owners alike. Baseball is so lucrative that players are more than willing subject themselves to policies like this in order to reap the rewards and to protect those rewards.
That being said, we do need to wait until the facts come out. It's okay to talk about what the Braves should do if he actually did what he's being accused of but it's too early to condemn him.