Originally my steam controller was working perfectly with the game using Ginput (downgraded to 1.0). But later on was experiencing game freezes while entering buildings during a playthrough. Googled some fixes where one wanted me to delete the gta_sa.set in the documents folder. Tried that and lost most of my functionality on the controller (A button could open cars but the other buttons [x, y and b] did nothing). So decided on a clean install and removed any lingering folders before I reinstalled.
Controller issue still persists and now I no longer have an option to toggle joypad or mouse + keyboard in the settings.