Hughes Edelbrock heads : Smallblock

I have a set of Hughes heads with the 2.08 intake valves and have been struggling with issues since assembly. The motor has plenty of power but one head runs a cooler temperatures then the other and the plugs look different on one side versus the other. I thought it was something with the fuel injection but replaced it with a new Fast Sportsmen System. The vacuum is lower than I would expect and the self learning on the computer leaves a weird spike at around 3K rpm. I changed cams and fuel injection in attempt to resolve issue only thing I can think is something is wrong with one of the heads. It did have epoxy in the ports when received from Hughes.

Does this sound like it could be caused by defects in the head?

Thanks,
Darin