Scott,

I'm not as clued up on the cozy management as some of the other guys giving you advise but my mate had an identical problem with his when he changed to Cozy management.

The Cam sensor was not set in the correct position (out only a couple of degrees)and the ECU was not giving a spark because it thought every thing was out of sink (if that makes sence).
He had to get it all re-set and the Cam sensor bracket bent a little till it picked up correctly.

Let us know when you get it sorted.

Matt