I'm new to the whole multi-boxing (currently just starting out with 1xProt-Pally, 1xEle-Shammy combo) but this gave my hours of pain. I'm using Octopus rather than keyclone but I'm certain you'll fix the issues by running the setpoint software as administrator within Vista.

Setpoint in normal user will work fine in windows apps like notepad (which I used for testing key sending) but not once you try to grab the keystrokes at a lower level (like in WoW or Octopus).

There's no way around the nag you will get every time windows starts once you've done it, other than to turn off user access control, which I would strongly advise against. You'll also need to click the option to start setpoint each time you boot too, but it's way better than not working.

Lastly, I'd recommend downloading Uberoptions, it's really easy to find with google and will allow you to re-program way more of your mouse buttons than normally possible.