Two possible reasons the best FGPts teams are significantly outscoring the best H2H FGPts teams:
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Sample size, many more FG points leagues to draw from. I wonder if we looked at average total scoring we would see H2H leagues scoring more
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League age. At a glance it looks like the overwhelming majority of H2H leagues are only in their first or second year, my experience has been that in general older leagues have higher scoring teams than younger leagues (with exceptions, for sure)