Well, it turns out I might have a bit more time after all right now. I won't be disappearing completely, just might be out of action for a month or two (remains to be seen - unpredictable work).
1) Anyway, re: expand all, perhaps this helps?
Is there a way to expand all categories by default? Where do i have to make changes in code?
Mediawiki has Jquery by default so you can just click with Jquery:
2) Re: replacements (find & replace)
Some wget instances weren't replaced due to it existing in gentoo or other instructions, or for other reasons e.g. looked like wget was necessary and scurl couldn't simply be substituted.
Now with replacing torproject.org instances with the .onion, I think you are referring to downloads only e.g. where normally it would be deb.torproject.org, instead replace with this where appropriate (?)
deb http://sdscoq7snqtznauu.onion/torproject.org jessie main
Other possible replacements: all references to "law enforcement" or "police" etc. could be replaced with "authorities" (?)
Perhaps also a find / replace for "state-level"?