mekineer wrote
Everything appears to be working, but there could be some consequences I'm not aware of, which would be nice to hear about before they happen and I don't know what's going on.
Well, you deleted stuff already. It's a bit late, eh? You actually deleted stuff that cannot be recovered. You might not care about it though, then you're fine.
https://www.dokuwiki.org/devel:dirlayout gives a good (albeit slightly outdated) overview of what is where in DokuWiki.