The Goddess and Protector

I have nothing against Hylia, but Nintendo just threw a monkey wrench in an already complex and perfect story concept by making Zelda a Goddess reborn, especially considering they made up a whole new Goddess that we've never seen before, I mean, they never MENTIONED Farore, Nayru, or Din except for the Silent Realms, they even refer to their deity as the Goddess! Singular! There' no clear idea on exactly WHAT Hylia represents either, just that Hyrule is named after her and her hero has an unbreakable spirit, which we ALL already knew. And isn't Link supposed to be FARORE'S Chosen Hero? Not Hylia's? I mean the Triforce of Courage, wasn't that generally considered to represent Farore while Nayru was Wisdom and Din was Power? What's that mean for the rest of the timeline! I like Hylia, but Nintendo is pretty much tearing apart the entire History of Hyrule's creation, something we ALL have seen several times that say pretty much the EXACT same thing, by adding her. I mean, where did she even COME from? I just, there too many gaps and paradoxes to have Skyward Sword and Hylia as an actual part of the Zelda timeline without completely ripping the fabric of what makes a Zelda game and causing all sorts of confusion. I'm sorry, but I'm saying that either Hyrule's ENTIRE history is completely wrong about the Goddesses, completely forgot about the Goddess Hylia who sacrificed her immortality for her people's safety (Yeah, that's being really grateful isn't it?), or there is some Alternate Universe in which Hyrule only has One Goddess and people live in the Sky! (Old Fashion Zelda fan side of me just flared up at the sight of her when she revealed that Zelda was the Goddess Reborn)