Windows 7 works correctly out of the box. 99% of the time it is the USER that does not understand how junction points or permissions work!
I can't say I really agree with this. Junction points are very nearly a useful feature. However, Microsoft is still too frightened of looking like *nix so they cripple features that would otherwise be very handy.
Why isn't there a very simple method of creating Junction points by the user? I mean without having to use the command line.
Why are Shortcuts still around? They are better served as links...errr, I mean Junctions.

When I drag something to another folder and select to "create a Shortcut" it would be better for everyone if it were "create a Junction." Why is MS afraid of doing that?
Why do I have to run an admin shell to create a Junction? Especially when I want to create a Junction of my own folder to another folder of my own? :sarc:
Why do they make some very obvious Junction points hidden and make the permissions such that the user cannot use them from Explorer?
It appears that Microsoft went a bit crazy with the file system around Vista. "We are moving 'Documents & Settings' to 'Users' but we want you to be able to get there the old way for compatibility, but we don't want USERS to get there that way because we are so embarassed by the horrid method we used. Also we are changing all of the 'My *' folders to get rid of 'My '. Except that now they are back in Windows 7 because it was too confusing. Confused yet?"
Yes.
It would be handy if they would get a designer to make these decisions rather than having a vote every time a new release of Windows comes out. "Who wants to go back to the old folder names? Lets see a show of hands."
At least all of the user data has migrated to the Users own directory. Except that some of the users data is in hidden folders and some of it still doesn't belong to the user.
Confused yet?
Of course you are, it was designed to be confusing.
I mean MS even tries to confuse themselves. I doubt half of them could tell you if My Documents is a junction to Documents or the other way around. And I defy anyone to explain why "My Pictures" (or Music or Videos) are junctions inside of "Documents" back to folders called "Pictures" outside of "Documents"