Pretty much out of boredom, I'm in the process of making my Windows 2000 Server file structure to look like a Unix file structrure

Rather than have:
c:\documents and settings
c:\program files
c:\%systemroot%

I want to look like so:
/etc
/root
/home
/usr
/var

etc. etc.

What kind of securty issues or any other issues will I run into doing this?