Both Chunin Exam Day and PKH basically work like this for me: he has good ideas, decent writing with flashes of really-good, and manages some fairly epic battle sequences, and it's all basically ruined by his inability to get the chip off his shoulder regarding whatever characters and ideas he doesn't like. I read each one once, and enjoyed them, but the idea of rereading them gives me hives (I'm usually an avid rereader.)
I have a Naruto fanfic, linked in my sig. It gives Naruto something like the Eyes of Death Perception from Tsukihime (idea from a challenge by Third Fang). The bit I think is notable is that I'm not making it just "Naruto pwns everyone with this horribly overpowered ability"; he doesn't actually use it that much, and he's more powerful than canon due basically to a nail that happened when he found out about the power a few years before canon start. /plug.
Favorite recent fanfic: Time Braid. Very good writing, which is a rarity; even the ones on the Fanfic Recs pages, which I'm taking to be basically the 10% that doesn't suck, usually don't have anything approaching fluency in writing. It also gives the protagonists godlike power (which is fun) without anything becoming predetermined or making them into sues.