G,
Well if the 2 servers are not pretty much identical. That could be the problem. They should be the same server version, fixpack, hotfix, jvm update etc... They should also have the same version of the Extension Library if you're running that. Ideally they should be on the most recent versions because they do put a lot of fixes to bugs in not only the core domino updates and fix packs but also the ext. library from OpenNTF.
I would not worry about checking for individual files/css etc. I'd focus on the installed versions of everything.
Also - you said in the other post you're not getting any errors... but you don't say where you're looking. Errors could be occuring that don't cause the page to blow up and stack trace. You should definately have a display errors control on the page if you don't already. Also you should install the XPages Log file reader on both your servers. That contains several pages that lets you easily look for errors "behind the scenes". It's possible that the problem server is giving off errors.
Dave