JayDee116,
I am having a problem understanding your diagram at:
http://www.dorrellco.com/fancontroller.html
You have the input 12v, output and ground all connected.
If you built this circiut it would short your PSU to ground and if you used a floating ground on your proto board it would fix the output at the input level.
There must be a mistake.
I tried to post to your site but you have blocked all registrations.
Ecto
Edit: This is serious people. Do not build the circuit as shown in the link. You will smoke your PSU in seconds.