I'm pretty sure that there IS a corporation between me and the parts...the ones who make them, market them and sell them! Do you think there isn't a markup on things that you buy from newegg or frys? The stuff I am referring too are the top shelf parts that you see advertised on sites like Anandtech etc. These aren't cheap. The point was it's still cheaper than any kind of mac pro, though of course you don't get the really nice case. There are still good cases to be had however.
The simple fact of the matter is that Apple's have a fairly large price premium on them. There is just no way around that. I have two mac's myself and am planning on a current pro. This is simply because I want to use OSX (along with windows when needed) and it's the only way to get it. People who like to say "Apple hardware is superior!" though are just flat out wrong. It's the same stuff as in PC's if not worse. The designs are obviously the best however. But we gotta be real about it.
You are right, but Apple is an additional link in the chain when you buy from them and that is an extra reason for added expenses. (Not to mention the fact that the Mac Pro is more than the sum of its individual parts, the OS, development, marketing, and support involved). It's obvious the Mac Pro is more expensive than something you can build yourself, but take a look at workstations sold by other big name corporations and how expensive they are. Still, the people that the Mac Pro is designed for usually don't have the time to build let alone support their own computers if something goes wrong. They are too busy trying to make money.