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Man you have chased your tail on this thing for quite some time. Made a lot of changes, non that worked. Your constant is the plugs if I am not mistaken? You need hotter plugs. Those autolite racing plugs run cool. You said they had a brownish "film or glaze" on the porcelain. Classic symptom of a plug not hot enough to burn off deposits, and cause misfire. This will cause the problems you are describing. Do yourself a favor and put in hotter plugs. I am sure the edelbrock tech line can get you close. I have been there. This will fix your issues. good luck
Excellent news! Which plugs did you go with? I checked the Eddy instructions on the Performer heads and they recommend RC12YC Champion (or equal) as a starting point. Major difference is the heat range (+4 steps hotter)and projected tip electrode. Drain the fuel out of the Eddy AFB carb and save it for something stock to mild. They work fine for that application as thats what they were designed for. Now for the tuning of the Holley SA... Set up your float levels and lock out the secondary with the black spring. Jet the primary on the rich side to start with and work you way to lean checking sparkplug color. Its safer that way. There are plenty of threads and Youtube videos on the process. Congrats!