1/365 no Koibito
Cute story about the developing relationship between two guys who have been friends for a very long time and after 10 years of meeting each other once a year they finally decide to take the next step.
Sono Yubi De Hagashite
Boy that is constantly being sexually abused by his uncle at home, bullied and physically abused by his classmates in school, and most likely blackmailed by his teachers, finds solace in a dark and lonely student-teacher who more than anything craves for acknowledgement. The story is really, really sad; that poor child has lived a miserable life for who-knows-how-long. Things seem to fare slightly better with this dude, but still, the relationship doesn't seem very healthy at all. Not that anyone reads manga for the healthy relationships :P
NeNeNe
Oh my gosh! There is no way this can get any cuter!!! Both of them are just too adorable and so, SO cute! It would be nice to see more stories with them, they were both so adorable hehe
Hoshi Dake Ga Shitteru
Really sweet story about a coffee shop manager and the boy that brings peace to his troubles.
Kimi wa Natsu no Naka
Two very unlikely friends learn more about each other [and themselves] as they're going on a movie-location pilgrimage. Sequel: http://www.mangago.me/read-manga/kimi_to_natsu_no_naka/
Gunjou no Subete
Story about two friends who had always been together and suddenly are forced to separate, how they learn to deal with the distance and what they learned about themselves because of it.
The Two Lions
Guy meets a former schoolmate who's acting a bit hostile towards him, after clearing up some misconceptions, they become friends. GOSH I loved the pacing of the story, the characters were well developed, even though it wasn't a long story I really could connect and relate to them. If there is any fault in this story is that there isn't more of it :P
Nise x Koi Boyfriend
Several stories, my favourite was the highschoolers one (Mifune <3)
Love Log