I've reproduced the web publishing environment from gnumatt.org on my machine at work. A few quick comments.

• There is a reason Cocoon 2 is still a release candidate, and not a release.
• The reorganized automagic class loading in Tomcat 3.3 is confusing
• War files are very cool
• I wish mod_jk worked like good old mod_jserv did
• Cocoon 2, when it works, is about the coolest thing since mitochondria