I've seen people mentioning Read Only Memories, which I can't help but strongly recommend against - it struggles with trying to be everything to everyone, and wants to both present a world where queer folks aren't oppressed and also talk about the oppression queer folks experience, which leads them to concoct a whole story around magical furry racism that just left me feeling icky. Also all the characters are annoying and the story isn't very interesting. At least it's gorgeous to look at, though.
I'd wholeheartedly recommend Night in the Woods, though. 3/4 of the main characters are gay or bi, and the story benefits so much from having more on its mind than just "being inclusive". It's a story about intersections and how capitalism effects the town and the people of Possum Springs. Everyone in Night in the Woods feels like someone I know in real life, either in my own small town or online. Also gregg rulz ok.
Also, I'd recommend VA-11 HALL-A, especially if you're itching for cyberpunk. It takes an angle on cyberpunk that I've never seen before, focusing not on the exploits of hackers or corporations themselves, but on the (mostly) ordinary lives of the (mostly) ordinary people who have to live in a world shaped by corporate dystopia and nanomachines and whatnot. Also it's got a dog in a hawaiian shirt.
Also also, there's Diaries of a Spaceport Janitor, a game about poverty and queerness set in a spaceport where you're the janitor getting paid pennies per hour to clean up trash, and also you've been cursed by a skull that follows you around all the time. Much like VA-11 HALL-A, Diaries focuses on the lives of those on the fringes of the genre it works in - your character in Diaries is struggling to get by in a world full of starfaring adventurers, and all she wants is to get off this rock. Also you have to regularly buy new genders from the gender vending machine.