I guess I'll make another poll thread to up activity here...
*ahem*
Yes, yes, the title says all. Mini-bosses don't count, that's why they're not up there.
Now aside from the poll, tell me which you thought was the most challenging. Of coarse this can be totally different from your favorite.
So, I liked Bongo-Bongo the most, it was adorable how he (she? it?) played a the drum while you fought it. Then you would bounce all over the place, making hard to get to it. Also the time when it owned sheik was quite funny. GO BONGO-BONGO! w00t.
Now the most challenging... GOHMA I would say Majora, (because all the other bosses are much easier than it.) because there was a ton of movement involved and launching well aimed arrows (if you fought the epic way without Z-targeting).