For sheer scope, it's hard to beat the Suikoden series. Casts of literally hundreds of characters, with complex storylines to match, have forged a following that borders on the fanatical.
Borrowed Dreaming
Categories: Card Captor Sakura, Other Anime, Other RPGs, Suikoden
Story Count: 28
Comments: Card Captor Sakura and DNAngel are the dominant fandoms here. Home of the Card Captor Sakura series "Icebreakers" (a Clearinghouse recommendation).
7/13/06
Crimson Elf's Cathedral
Categories: Square-Enix, Other RPGs, Suikoden
Story Count: 60
Comments: Home of the story "Final Fantasy VII - Twisted."
11/29/04
IcyBrian's RPG Page
Categories: Square-Enix, Other RPGs, Xenosaga, Suikoden, Lunar, Phantasy Star, Other Video Games
Story Count: 800+
Comments: One of the largest RPG fanfic archives remaining in existence. About half the stories here are Chrono Trigger fanfics.
8/26/04
Karthurville
Category: Suikoden, Lunar
Story Count: 9
Comments: Suikoden III and Lunar fan fiction.
3/28/05
Lex's Page
Categories: Cartoons, Other Video Games, Mega Man, Suikoden, Other Anime
Story Count: 12
Comments: The link to most of the Transformers stories ("tf fan") is broken.
10/2/04
Mimiru.net
Categories: Sailor Moon, Ranma, Evangelion, Suikoden
Story Count: 11
Comments: Home of the Sailor Moon story "Shades of Gray."
1/14/05
Ne me mori facias
Categories: Square-Enix, Suikoden, Other Anime
Story Count: 75
Comments: Final Fantasies VII and VIII are the predominant fandoms archived here.
5/30/05
Official Jonatan L Website
Categories: Suikoden, Phantasy Star, Square-Enix
Story Count: 13
Comments: Suikoden, Final Fantasy VII, and Phantasy Star have stories in the Library. Last updated in February 2004.
5/24/05
Strider's Ranma Archive
Category: Ranma, Other RPGs, Suikoden, Star Trek, Buffy/Angel, Harry Potter
Story Count: 11
Comments: An archive of original Ranma crossovers. Home of the Ranma/Wheel of Time crossover "The Pegasus Cycle."
7/15/05
Sylvana
Categories: Xenosaga, Square-Enix, Suikoden, Other Anime, Other RPGs, Harry Potter
Story Count: 100
Comments: Stories are organized by date of publication.
7/22/05
Wanderer of Time
Categories: Xenosaga, Square-Enix, Suikoden, Other RPGs, Slayers
Story Count: 18
Comments: Home of the Final Fantasy VI story "Solitude of Magic." Last updated in March 2003.
12/23/05