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I always think of Uxie and Mesprit as females and Azelf as a male, although in PMD iirc Uzie was a boy... Buuutt I view Shaymin as a female, as with Meloetta (don't see why they made her genderless...). But other than Meloetta I usually don't mind legendaries being genderless. I was a little confused why they gave Heatran genders though. Kinda random and unneeded.
That Yina nd Yang and Wuji logic was interesting too! I ddin't know that ;)