I ran into this issue with @cderv over on the Rstudio community site, and he suggested that I should open an issue here.

If you try to use a pandoc-style multi-line footnote (as shown below) it will not be rendered in the HTML version of the book, and following footnotes in the same chapter will be mis-numbered. (It will render correctly in the PDF and ePub file, though.)

If you add an empty page at the end of your book for citations, then the footnote will incorrectly show up there (unless there are additional footnotes after it in the same chapter, in which case it won't show up anywhere, even in the references/citations page).

Sample footnote (number 1) that will not show up anywhere, even if you include a references/citations section:

Here is some text with a footnote[^1] specified.

Here's another paragraph[^2] with a second footnote[^3].


[^1]: This is my multi-paragraph footnote first paragraph.

    This is a continuation of the footnote.

[^2]: Second footnote text.

[^3]: Third footnote. 

I'm running the latest code and I've done my best to provide all the necessary information, including reproducible code. But I don't know what an "xfun::session_info('bookdown')" is. Nor have I tested this on the development version. Perhaps @cderv can help me out with those?

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