I suppose I should compile a list of my favourite pairings from fandom here, however hated my opinions may be...

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Fushigi Yuugi
~Tatara/Suzuno
~Yui/Suboshi
~Mitsukake/Shouka
~Tomo/Nakago
~Soi/Nakago
~Renhou/Miisu
Genbu Kaiden
~Tomite/Takiko
~Shigi/Hakei
~Soren/Uruki

Ayashi no Ceres
~Yuuhi/Aya
~Shuro/Kei
~Miori/Touya
~Mikagi/Ceres
~Kagami/Gladys

Final Fantasy VII
~Cloud/Aerith
~Vincent/Lucrecia
~Kadaj/Cloud

Fire Emblem: Rekka no Ken
~Eliwood/Ninian
~Heath/Priscilla
~Sain/Priscilla
~Bartre/Karla
~Matthew/Leila
~Serra/Lucius
~Rebecca/Raven

Fire Emblem: Seima no Kouseki
~Eirika/Lyon
~Ephraim/Lyon
~Amelia/Neimi

Tales of Symphonia
~Kratos/Anna
~Regal/Alicia
~Yuan/Martel
~Mithos/Martel

Guilty Gear
~Zato/Millia
~Venom/Zato
~Testament/Dizzy
~Axl/Megumi

Star Ocean 3
~Dion/Ameena
~Arzei/Elena
~Lieber/Maria

Cowboy Bebop
~Spike/Julia
~Vicious/Julia
~Vicious/Gren

Gundam Seed
~Kira/Flay
~Shinn/Stella
~Natarle/Murrue
~Meer/Athrun
~Rey/Gilbert

Gundam 00
~Lockon/Feldt
~Lockon/Tieria
~Lichtendahl/Christina
~Billy/Sumeragi
~Saji/Louise

Code Geass
~Suzaku/Euphemia
~Lelouch/Shirley
~Mao/C.C.
~Guilford/Cornelia
~Nina/Euphemia
~Lelouch/Rolo

Fruits Basket
~Haru/Rin
~Hatori/Kana
~Hana/Tohru
~Yuki/Tohru

CLAMP series
~Subaru/Seishirou
~Kamui/Kotori

NaruTaru
~Bungo/Satomi
~Hiroko/Shiina
~Norio/Takeo
~Takeo/Shiina