You can make any standard folder a system folder by using a vb script called togglesystembit I think.
As for folders like printers, control panel, My Computer, etc..., they aren't actually real folders but virtual ones, otherwise known as namespace extensions.
Other folders are both real and virtual, that's the recycle bin, the temporary internet files, Cookies and IE history folders for example. Here you have namespace extensions handling the contents of real folders.
If you want to create such folders you need to learn coding and write a namespace extension dll and register it in your system.
That's a nice tool to put executables in the control panel :
http://www.simtel.net/pub/pd/68753.html