So, the draugr in Bloodmoon exist because while they were living they had to resort to cannibalism to stay alive. The All-Maker (who I assume is Kyne) cursed them into undeath for this as it was a perversion of nature. However, the Wood Elves have their own aspect of her, Y'ffre, and cannibalism among them is a highly common thing. Do different aspects of the same God impose different rules on different people?
It seems they do.
However, as I have understood it in Skyrim the draugr are not created by a curse on the ones who partake in the flesh of their own kind. As I have understood it they are the nords who once worshipped the dragons and served the Dragonpriests. I can't remember the title, but IIRC there is a book in Skyrim explaining how the draugr regulary give what blood they have to the priests.