A question came up in the Stata forum regarding cross-references in markstat documents. If you are generating PDF via LaTeX, you can rely on LaTeX to handle numbering and references. I have written a short example showing how this can be done. Here are links to the script and resulting pdf file
A later question dealt with cross-referencing a table created with esttab. The
solution is to use the title() option and include a LaTeX \label{id}
when specifying the table title. For more information see the
Stata forum post.
Unfortunately, these solutions work for LaTeX only. I have been looking for more general solutions that work with other output formats. So far the best I have found is Nicolai Yakimov’s pandoc-crossref filter, which you can find at https://github.com/lierdakil/pandoc-crossref. I am considering incorporating this filter in a future markstat update. Comments welcome.