Yep I had a good read of the linked thread and the original thread linked in that linked thread (if you get my drift), I did find it though but haven't had a chance to truly test it out against just normal averaging between 3 captures as I'm working encoding the extras for ESB DVD today.

It was in the test zip you posted: http://www3.telus.net/11811/doom9/TooT_Test_ Kit.zip (thanks!)

edit: I wonder if someone could come up with a version of TooT that does an "Average Best Of X clips", basically TooT that can handle more than 3 sources.