I think only 'Back of the Bar' and '_____'s finished...
Twilight Princess:
Never After
I wouldn't turn my back on my shadow at any time...and since your shadow seems so keen on rarely being empty, I certainly wouldn't if I were you, Hero. [post Twilight Princess] [cuz a busted mirror is so totally not going to stop anything, silly Midna]
Drabbles in Twilight
Twilight Princess The hero was the legend, and the tales the acts of bravery. But what of the stories that were never truly told? Oneshots
Barren Lands
[Twilight Princess] He's finished his mission and lost his purpose. Wants only shadow but is granted light. Is given a second chance... but is he strong enough? !SPOILERS!
Back of the Bar
TP. Concerning four characters who weren't as well explored as they deserved to be. Ashei, Auru, Rusl and Shad played as much of a part as any in this chapter of Hyrule's history. Eventual spoilers, obviously.
Ocarina of Time:
The Mirror Tells All
Link returns home to Hyrule after a journey that has eaten the rest of his childhood. What he finds is a peaceful land on the outside, but a political scene full of turmoil he doesn't understand. Chapter 17! Oh there's the plot! I thought I lost that!
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Edit: Forgot to mention this one!
Idiots From the Fifth Dimension
Ganon from the cartoon series transports Ganondorf from Twilight Princess to his world. Can Ganondorf find his way home before the inhabitants of this world drive him insane?