Checked signal at J1 which is the crank square wave. Here's a vid of the crank signal. Was hoping I'd find a smoking gun on this today and be able to work it out with the filtering function in TS, but nothing really caught my eye.
http://www.youtube.com/watch?v=SD4od1097tA&hd=1
After looking at the square waves of both the Crank and Cam, it seems like the correct settings for this in TS would be Rising & Rising.
Starting to run out of ideas here as so far nothing has stood out to me as being an issue thus far. I'm going to take another video comparing the square cam & crank to show how they match up. After that, I really am starting to run out of ideas. I just ordered up a HobbyLab USB scope so I should be able to take some logs with it with the Logic Analyzer function that might be able to tell us more than this old scope meter.