Sad but true; Hotohori & Miaka fanfiction is very rare. Collected below you will find every piece I've ever found.

Emperor & Maiden: Episode 20, 21, 22, 23, 24 ~ Laurelgand

God Hurts Those He Loves ~ Gerald Tarrant

Kuusou ~ Dave Clayton

The Ruler of a Lonely Night ~ Megumii

To Live My Life: 1, 2, 3 ~ ChichiriDA

What if? ~ Author Unknown http://www.mitsukake.com/fanfics

Longings of The Heart ~ Stormlight

Summoning Suzaku: Part 1, 2, 3, 4, 5, 6, Side Story ~ Seafire

Not enough? Check out Crimson Legend: FY Fanfiction Archive. Please send your Hotohori & Miaka fics to Laurelgand!