those of us who are interested in keeping some control over where our work is published will be going to have to take everything down from public archives and just keep it on personal journals that can be set to private whenever we choose

I think if one felt that strongly about it, that is exactly what one ought to do. The internet is not a private place really. Over the years, I have actually heard a lot more crying from people about losing their work though archives disappearing. I'm pretty neutral on the subject. I do tend to lean in the direction of preserving rather than losing things, especially literature. But I have all my life written for a living. So published has always meant published for me. Public and non-revokable. I do use a pen name for fanfiction. That has worked for me. And it is a time-honored tradition for writing outside of one's usual area or comfort zone. I realize there is a different culture in fandom--it's just kind of foreign to me.