Thanks for the link to yet-another-setup-guide!
Seriously though, thanks!
I think I came across the answer to #1 too. Correct me where I'm wrong: the source code is the binaries for those who want to compile the build into those directories that contain zone and world executables, right? So you compile them in Visual Studio or something?
An answer to #3 and/or a solution to why my quests aren't working when I build the server from scratch is all I need now. Then I promise to go away!