[Al Skierkiewicz]

Mark,
I am guessing you are still measuring open circuit on the controllers. The FAN5109 gate driver used in the grey Jags has "adaptive gate drive" and so maybe responding to the lack of a load. The bootstrap cap might be having some effect as well and there is feedback to the micro from each of the bootstrap circuits. (VbootA and VbootB) Are you hanging the scope across the output of the controller or are you connecting the probe ground to the negative power supply input and then connecting the probe to one of the output terminals?