I'm not a lawyer, but as a businessman I've dealt with a lot of legal issues over the years. I think this is a clear attempt to separate the "mothership" from the congregations, I also don't think it will work and it may back fire.
A joke attributed to Abraham Lincoln: "If you call a tail a leg, how many legs does a dog have? Four. Calling a tail a leg doesn't make it one." Similarly calling the congregations independent entities (a legal term BTW) won't make them such. A half decent lawyer will be able to connect the dots, even if they don't have logos on them. And as noted above they could be creating conditions where local groups could simply declare independence.
They'd be better off to address the actual issues, but they've never done so before, I wouldn't expect them to now.