Much of this information was submitted via email, with some minor edits and additional sources added as necessary.
In NieR: Automata (2017) there is a scene where a support character named 6O, a female android, tells the main character that she asked another female android out on a date and was rejected. She also seems to have feelings for the main character 2B and there’s a side quest where 2B can collect photos of flowers to send to her (as 6O lives on a space station and can’t come to Earth herself).

Image credit: https://nierautomata.wiki.fextralife.com/file/Nier-Automata/Find_A_Present.jpg?v=1516750646097
LGBTQ references in this series:
Operator 60 (NieR: Automata)
11B and 16D (NieR: Automata)
Citations:
- Find a Present. (n.d.). NieR: Automata Wiki. Retrieved from https://nierautomata.wiki.fextralife.com/Find+a+Present
- Operator 6O. (n.d.). NieR WIki. Retrieved from http://nier.wikia.com/wiki/Operator_6O
- Operator 6O. (n.d.). Nier: Automata Wiki. Retrieved from https://nierautomata.wiki.fextralife.com/Operator+60
- Sriduangkaew, B. (2017, May 23). Love in the Time of (NieR:) Automata. Medium. Retrieved from https://medium.com/@soverybee/love-in-the-time-of-nier-automata-95c1221e0e8
- The Foodie Geek. (2017, February 23). NieR: Automata- Operator 6O Rant (Rejected Confession). YouTube. Retrieved from https://theark.wiki/w/Emil%27s_Recollection#.5BDay_54.5D
- YoRHa No. 2 Type B. (n.d.). NieR Wiki. Retrieved from http://nier.wikia.com/wiki/YoRHa_No.2_Type_B