Where can I find a list of Apple preferences/plist files & what they're used for? Does anyone know of a resource that lists the Preferences files/plists (pertinent to OS X and Apple applications, not third-party apps) found in ~/Library/Preferences (and the other locations too, but that would be a start) and what they're used for? 

I've been looking around and can't find anything.  The closest I found was this chart compiled by appleexaminer.com — but that only covers a few items, and the obvious ones at that.
It's fairly easy to figure out which files in ~/Library/Preferences are used by Apple applications and which app.

All the Apple ones start com.apple and then almost all continue with the name of the application or part of the system that they are a preference for - some examples com.apple.ScreenSharing.plist or com.apple.TextEdit.plist

With the less "specific" ones once you know more about how the back end of the System and Finder hang together you start to realise what they are, for example com.apple.LaunchServices.plist is the one that defines your personal URL and file type handlers as that is done by LaunchServices.

Mac sysadmins tend to slowly get a list of the more important ones as we use them to push preferences out to our managed Macs. If all else fails I use InstallEase, the free utility from Absolute, to snapshot a Mac then change a preference and do another snapshot to see what changed.