Hi Jed,
 

> That plugin is from tiddlywiki classic, it probably wouldn't work for 
> tiddlywiki 5. There is a way to make footnotes in TW5 shown at braintest 
> <http://braintest.tiddlyspot.com/#PopupFootnotes> that works well. I am 
> not aware of any other footnote implementations for tiddlywiki 5.
>

While that does provide certain footnoting capabilities, this 
basic-wikitext-features-only footnoting seems quite cumbersome and 
non-intuitive. I'm hoping to eventually create 
<http://tobibeer.github.io/tw/dev/#FootNotes> something more generic and 
less repetitive, where you have...

   - the same footnote text in the popup and at the bottom
   - a backlink from bottom to top
   - can use a user defined footnote ID but don't have to

...using a custom JavaScript macro and a global / temporary footnotes 
object to store references in.

Best wishes, Tobias.

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