Er I have a few (and I'll probably have more after Feb cause it seems like everything is coming out then *sobs*)

TV

Sherlock - Sherlock/Molly

Hawaii 5-0 - Steve/Lori, Danno/Lori, Kono/Lori (yes *blushes*)

Merlin - Merlin/Morgana

The Secret Circle - Cassie/Diana, Cassie/Jake, Cassie/Diana/Jake

Terra Nova - Maddy/Mark, Maddy/Skye

Anime/Manga

Mistress Fortune (We need more of this!)
Spirited Away
Arrietty
Spiral (both)
Corpse Princess
Girl Bravo

Films

Percy Jackson (Sue me, I liked the film :P)

Blade Trinity - Hannibal/Abby

Games

Final Fantasy XIII/XIII-2 - Hope/Vanille, Fang/Vanille, Lightning/Snow, Lightning/Fang, Noel/Serah (not even here yet and I'm shipping them!)

Final Fantasy X - Tidus/Yuna

Zelda - OOT - Link/Malon, Skyward Sword - Link/Zelda

Dead or Alive - Kasumi/Ryu, Hitomi/Kasumi, Leifang/Hitomi, Hitomi/Hayate

Magna Carta 2 - Juto/Zephie

The Last Remnant - David/Irina, Rush/Emmy, Rush/Hannah

Star Ocean - Millie/Roddick, Fayt/Sophia

Devil May Cry - Nero/Kyrie

Pokemon - White(Female)/Skyla