A domain, a couple sub-domain, & multiplte instances

[eluser]phusiondesign[/eluser]
Ok, so I also just tried this format and it works.

Code:

[ root ]
--- index.php // this is your ONE index.php file //
       ($system_folder = "system"; $application_folder = "application/one";)
--- [ system ]
   --- license.txt
   --- [ application ]
      --- [ one ]
      --- [ two ]
      --- [ three ]
   --- [ All the system folders go here... ]

--- [ two ]
   --- index.php// this is your TWO index.php file //
          ($system_folder = "../system"; $application_folder = "../system/application/two";)

--- [ three ]
   --- index.php // this is your THREE index.php file //
          ($system_folder = "../system"; $application_folder = "../system/application/three";)

Now I need to configure the .htaccess files... any suggestions?