You can disable auto-update on GOG Galaxy if you have the game currently installed. (Cogwheel > Settings > Game features > Untick 'Auto-update games') A Legacy Version of Saints Row IV will also be available via a separate Beta Branch on GOG and Steam.
To access the old version of Saints Row IV, right click on the game in your library, go to properties > beta and use the dropdown menu to select the version you want. For more help with this: https://help.steampowered.com/en/faqs/view/276C-85A0-C531-AFA3 However, the differences between old and new versions will be minimal, and save games will be compatible.