Wraithlord, I really think it's far less work and a better end result to redo the whole thing in another format than writing a parser. Some things are easy to replace, for example the URL links, but some things might be needlessly complicated. I'd setup a Wiki for you so that you can use a real Wiki, too. But if you want to write a parser for this, regardless, that's ok.
If you want to use a text-based markup language that's easy to write, easy to read and easy to parse (which e.g. Wikitext is not), then use Perl's
Plain Old Documentation:
http://perldoc.perl.org/perlpod.html
There are already converters for pod to pretty much anything: pod2html, pod2latex, pod2man, pod2text, pod2usage and a podchecker to check the syntax of your pod files.