I like Tokyo Bablon and X (Subaru and Seishirou) and X with Kmaui and Fuuma (did a amv about their love)
I also like...
Gravitation
TRC (*KuroFai* ahem...and Touya/Yukito)
Legal Drug (although not really shonen-ai)
Fake (the anime is much worse than the manga)
CCs (Touya and Yuktio)
I also read Desire, by Maki Kazumi and Yukine Honami. It's a yaoi one, so there are one or 2 explicit scenes, but overall it's a sweet read if you ignore them.
It's basically about
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a boy who has a crush on his jock of a friend, but doens't want to admit it in case of losing his friendship. But his jock friend gets curious about ummm...gay 'love', and asks if the boy will help him satisfy that curiosity. The boy has to choose between the physical side of a relationship, or having nothing at all.