It looks like the happy path is to transpile from Markdown to Tex to ePub 
to get Bibtex to work.

On Tuesday, April 7, 2020 at 8:47:57 AM UTC-4, Ben Wilson wrote:
>
> I've not found an answer to this yet, so asking on the off chance someone 
> can point me in the right direction. I would like to create both an ePUB 
> and PDF of Markdown with a Bibtex file using Pandoc. It looks like the only 
> sane way is to convert the Markdown to PDF, which takes me through LaTeX, 
> then use something like Calibre's ebook-convert commandline to do the rest. 
> Is there a vanilla Pandoc way?
>
> Thanks in advance.
>

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