There is also only so much that should be done, since they should have the right to run their own instance however they see fit.

Disagreed, I’ve seen them trying to force their hand on other instances into running things the way they want them to, so I think it’s only fair others hold them to some standards as well. After all in the Fediverse there is some leverage you do have to get other instances to compromise, by way of simply refusing to operate with them anymore. Obviously that doesn’t mean completely bossing them around, which is why I said compromise, not comply. It also is still their choice whether or not to follow through, it comes at the cost of them no longer inter-operating with servers they refuse to compromise with, but I think that’s more than fair enough as a trade off.

It is also a good idea to push for alternatives, but even so, if the issue isn’t addressed it will still be problematic on those problems due to the size and weight the instance and its communities carry in the Fediverse.