Carbon tracking through rotor. More HEI woes.

Somewhere I found information about polarity of the pickup wires. They are wired correctly. I don't want to swap them 'just to see' because I think it will damage the module or cause a weak spark.

No, you are thinking wrong. All it does is change the spark position. It's an AC signal. Wired one way, the first pulse is positive, the second negative. You swap them, they are reversed, and displaced in time. Swapping them IS THE WAY to find out if that is the cause of rotor phase problems.

Wire color is sometimes wrong. Swap them and see, and make darn sure the reluctor is correct