My favourite pairing would be Takiko Okuda x Rimudo Rowun(Roun)/Uruki from Fushigi Yuugi Genbu Kaiden.
Unlike Miaka and Tamahome in the original Fushiyu, their love is much more realistic, and it takes time to grow. Though Miaka confesses to Tamahome quite early in the series, it takes both Takiko and Rimudo time to realise what they feel for the other.
And I have a weakness for tragic love stories
that end well. There's so much going on, and so many obstacles on their path... I really wish it'd end happy. But the reference in the OVA of the original series shrouds a dark cloud above the Priestess of Genbu and her Celestial Warrior.
Yuu Watase, please continue the series already. D: A year is long
My second favourite pairing would be Shuurei Kou x Ryuuki Shi (Saiunkoku Monogatari).
Because... well, many reasons. It's too complicated to explain in 3 lines.
Third season please?
Though I am a reader/watcher of <mainly> Shoujo Manga/Anime (with a big hint of Fantasy), there aren't that many pairings that I'm really a fan of. I am fan, but once I finish the series, I couldn't bother anymore...