1) Neon Genesis Evangelion
Neon Genesis Evangelion follows a group of teenagers who must work with a shadowy organization, NERV, to pilot bio-machines called Evangelions and fight monstrous beings called Angels to save a future Tokyo. The series centers on teenage boy, Shinji, as he fights Angels, copes with a seriously messed up father-son relationship, has one existential crisis after another, and explores his sexuality with Kaworu Nagisa. Though Kaworu only appears in two episodes, his relationship with Shinji made a huge impact on fans.
2) Revolutionary Girl Utena
Revolutionary Girl Utena follows Utena Tenjou, a teen girl who decides to become a prince. She meets Anthy Himemiya at Ohtori Academy, and fights to protect her from another student that Anthy is in an abusive relationship with.
3) Sailor Moon
If you watched the censored English dubbed version of Sailor Moon as a child, you may have missed the lesbian relationship between Sailor Uranus (Haruka Tenou) and Sailor Neptune (Michiru Kaioh). They were definitely not cousins. Also, pretty much every Sailor Scout has a crush on Haruka at some point.
4) Aoi Hana (Sweet Blue Flowers)
Aoi Hana focuses on high school students Manjoume Fumi and Okudaira Akira. Fumi goes from one failed lesbian relationship to another, but Akira remains a constant source of stability in her life.
5) Hourou Musuko (Wandering Son)
Hourou Musuko depicts a student named Shuichi Nitori, described as "a boy who wants to be a girl," and Yoshino Takatsuki, described as "a girl who wants to be a boy." The series deals with both characters coming to terms with their gender identity at the beginning of puberty.
6) Sasameki Koto (Whispered Words)
Sasameki Koto focuses on high school student Sumika Murasame who is in love with her best friend Ushio Kazama. Though Ushio likes girls too, tall and athletic Sumika is afraid to confess her love, because Ushio only likes girls she considers "cute" and "small"
7) Ouran High School Host Club
Ouran High School Host Club focuses on Haruhi Fujioka, a high school freshman attending the prestigious school on scholarship. Haruhi discovers the Ouran Host Club, in which handsome boys play romantic hosts to girls of the school. The boys of the host club think she's a boy at first, but her ID says female. Haruhi is happiest in neutral clothing, joins the host club, and entertains girls. There are several other characters in the show who are LGBT, including Haruhi's father, a bisexual drag queen who prefers to be called Ranka.
8) Antique Bakery
Antique Bakery is a comedy about four men who run a bakery. Yusuke Ono, the patissier, is openly gay. Chikage Kobayakawa, a waiter, has a crush on Ono. Keisuke Tachibana is the owner of Antique Bakery, and is the only man who Ono finds attractive but who is not attracted to Ono in return.
