OSDev.org

I am generate HTML files with Doxygen fine - http://messiahandrw.dynalias.com/Percep ... mentation/ (it's far from complete, and I won't update it until it's near completion). However, I chose to generate an RTF file, and I was going to open that in Microsoft Word (like the Doxygen documentation recommends) then export to a PDF (using PDF Creator). However, there are no page numbers, it inserts gibberish in place of references, and the embedded images are invalid.

Stuff Doxygen. I'm writing my API in Word and publishing it as a PDF.

you can generate LaTex output , then convert it to PDF using any LaTex distribution e.g. miKTeX http://www.miktex.org