Cannons to check out
Ginyoko no Fam: awesome female cast, possible pairings up to OT5 (?)
Utena! (Juri! Anthy! Utena! Nanami! etc)
Witch Hunter Robin is a female led cast, I het ship it, but there are definitely femslash options
Kuragehime (female cast + cross dressing guy, fandom typically focuses on him tho)
Cordelia's Honor - I het ship this obvs. but it's one of my fav books and anything about Cordelia is amazing.
Sound of Music - ditto above.
K-On, it's a female centric show and there's definitely shipping potential/ship-bait in the show (it's moe tho)
Homestuck: Kanaya/Rose (+ huge cast with lots of ladies)
Attack on Titan: Christa/Ymir (side characters, cannon relationship)
Sanctuary has some awesome female characters, dunno what fic there is but maybe some good Magnus gen?
Dark Angel fem lead cast and cannon lesbian bff side character
Vocaloid - has female characters (main characters?) Miku/Luka or other combinations.
AGENT CARTER :D
Magic School Bus!

? Kino's Journey (depending on how you interpret Kino's gender identity)

Fandoms to look into:
Gundam Wing: Dorothy Relena
Attack on Titan: Annie/Mikasa
Last Exile: Tatiana/Alister need more love/stuff about them! (there’s nothing, I’m just wishing)
Star Driver - Wako centric fic (she's part of a m/f/m OT3 but there's probably some thinky gen out there?)
PlanetES, there's gotta be some good Ai focused fic (I know I've podficced at least one), also I have such a crush on Fee

...I'll have more later :)