Well, gender and pronouns are two separate options, so it's possible you misclicked something. Also, be careful during the intermission after Chapter 1: it contains the option to change pronouns, so that's also something you could have accidentally clicked on. If it happened only once I'd think it might be a bug, but it sounds like it's constant? If you aren't too far in the story, restarting might be the easiest solution. I'll still take a look and see if I can find anything that might be a bug though.