Im having a little of a hard time understanding what is going on, but to be on the safe side, I would block one set from the search engines. This is really the only way to be safe. I hope it wouldn't ruin your navigation or anything. The dup penalty is a little weird. I dont know anyone that can ever say for sure if it is going to be applied, so its kind of a guess. But like i said, the only way to be really safe is to block one set.
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