I'd like to use Calibre to serve my customized PDF files to me and my friends who all have root nooks with Trook on them. Trook can parse stanza libraries. But when I navigate to the myserver/stanza, none of my PDFs are listed (which for me is almost everything I want to serve in this fashion).

Is there anyway to get Calibre to serve PDF files like this?

Not without editing the source code I'm afraid. The server serves only epub and pdb files via the stanza feed.