Meg Murry and Calvin O'Keefe from the "Time" books by Madeline L'Engle. Meg is a rare heroine that we don't see often these days, with straight-forward, clumsy emotions but also keen intellect. She and Calvin are both very intellectual, and the development in their relationship is some of the best you can get in YA fiction. They have been converted to my style, so Meg now has a suitable "anime meganekko" look about her.
(Happy Valentine's Day!)