Almost every boss fight was incredible and memorable.
×Boss 1:
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×Sort of a meh boss. The need to look at both screens is introduced, but I didn't find it to be that much fun.
Boss 2:
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×Kind of a "Wow, this would be fun to do in real life" boss, but wasn't really that difficult to figure out what to do.
Boss 3:
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×Oh man, this was amazing. This is the best way to do an "invisible boss" thing, and really does for some brain-thinking. The second part wasn't too phenomenal, but didn't take away from the amazing and incredible first fight.
Boss 4:
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×This was a really easy boss fight to predict, and to figure out what to do. Execution took a bit longer, just because you had to do it so many times.
Boss 5:
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×Ever since Wind Waker, I'd missed having some help through a temple. No longer do I miss it. And "help" during a boss fight? Yay! I love the idea of a 2-character boss. Even though the boss was traditional, that Gongoron made it that much better.
Boss 6:
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×This boss fight took me the longest to figure out, so I'm not going to spoil it. The second half was really fun, too. Pow! High difficulty (at first, for me), and then abject fun and whompage.
Boss 7:
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×Eos was my favorite. Maybe because this item was my favorite? Either way, it was pretty obvious what to do, but doing it was just so much fun. Wheee! It felt like fighting Stallord in TP, only without the polar coordinates. Fun factor huge.
Final Boss:
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×It was pretty easy to figure out, especially if you'd played other Zelda games before. (Hmm...I wonder what I do with these eyes...) There were a good amount of phases, but the best part was the story that went along with the boss fight. It wrapped everything up incredibly, making the end sequence almost extraneous. The phase 4 intro was awesome. Probably the best cutscene in the game.
My ranking, from best to least best:
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×7,3,F,6,5,2,4,1.
As almost always, though, I want a boss-run function.