1. Download and Run the Installer, Install to the usual location
2. Create 2 shortcuts to the GPU client .exe onto your desktop(for easy access)

3. Go into your Application Data folder and copy/paste the 'Folding@Home-gpu' folder and rename it to something you can distinguish, this folder holds your config/worklog and other misc. files, and is where the actual application will run from
XP----------C:\Documents and Settings\[username]\Application Data\
Vista/7----C:\Users\[username]\AppData\Roaming\

4. Go to the desktop(or where you made the shortcuts) and click on one of the shortcut's properties(GPU0 lets say first), and enter the following: target is where the .exe is, and it starts in the folders created in appdata, whatever you ended up calling them
xp---------Target: "C:\Program Files\Folding@home\Folding@home-gpu\Folding@home.exe" -gpu 0
------------Start in: C:\Documents and Settings\[username]\Application Data\Folding@Home-gpu0
Vista/7---Target: "C:\Program Files\Folding@home\Folding@home-gpu\Folding@home.exe" -gpu 0
------------Start in: C:\Users\[username]\AppData\Roaming\Folding@Home-gpu0

5. Go to the desktop(or where you made the shortcuts) and click the other shortcut's properties(for GPU1 this time) and do the same:
xp---------Target: "C:\Program Files\Folding@home\Folding@home-gpu\Folding@home.exe" -gpu 1
------------Start in: C:\Documents and Settings\[username]\Application Data\Folding@Home-gpu1
Vista/7---Target: "C:\Program Files\Folding@home\Folding@home-gpu\Folding@home.exe" -gpu 1
------------Start in: C:\Users\[username]\AppData\Roaming\Folding@Home-gpu1

6. Disable SLI(if enabled) in the nvidia control panel settings; and Extend Desktop to another monitor(an imaginary one likely) you have to disable SLI FIRST
XP---------Control Panel-> Display-> settings-> Display: select secondary-> Check "Extend my Windows Desktop onto this monitor" -> apply-> Ok
Vista------Control Panel-> Display-> Change Display Settings-> Detect-> "Available Display Output..."-> "Try to connect anyway on: VGA"-> Apply-> "Extend these displays"-> Apply-> Keep Changes-> change resolution of extra "output"









7. Start each client for the first time from the shortcuts you made earlier, and fill out the configuration, following those steps here
8. Disable any and ALL power saving options(if you're folding on Dual GPUs you're the kind of user that doesnt need them anyway) because if your computer goes to sleep, it'll hard lock and you'd have to reboot to be able to do anything
xp----------Control Panel-> Power Options-> Settings for Scheme-> Set everything to "Never"
Vista/7----Control Panel-> Hardware and Sound-> Power Options-> High Performance-> Change Plan Settings-> Change Advanced Power Settings

and Happy Folding
sources:
[H]ard Forum Multi GPU guide
LR GPU Installation Thread
My hunting around control panel in 7






