Just because you had done bad things in the past doesn't inherently mean you are a bad person.
The Legend of Zelda: Majora's Mask
Kingdom Hearts
Sora is literally like the ideal friend everyone should strive to be.
Psychonauts
The Evil Within
I believe Sphere Hunter described this as "Resident Evil, but for depressed people". Yeah, I first played this game during a very difficult time in my life where I was depressed and burnt out and the bleakness of it all made me feel better about my own life.
Sea of Thieves
No story, but the bonds with others over this game genuinely helped me communicate better.