I have always had a hard time at it.
Im not sure if theres a way to set an asp.net application to a subfolder without creating a virtual directory.
I was told that if I go to File manager of the domain in question, click on Web Directories, navigate to the desired folder and once Im inside it I click on the asp.net icon at the top it does set that folder as a asp.net.
However in my practice it does not work.
In my case, if I create a virtual directory, it works if I address the virtual directory straight in the browser, but If I address the virtual directory from within a script, it will not run properly.
Any insight will be greatly appreciated.