sometimes you don't need to update sys-tweak but if atmos crashes after updating just remove sys-tweak.Thanks. And to use it I just have to make sure that after each Atmosphère update, that there is an update for switch-sys-tweak, right?
then download the latest sys-tweak.nsp and rename it to exefs.nsp and place it back into the sdmc folder shown above.
check out @cucholix thread for sys-tweak info : https://gbatemp.net/threads/custom-game-icons-tutorial-and-sharing-hub.574675/
I've used it since 2020 and only had to update sys-tweak like 3 times but I don't always update atmosphere instantly and wait a few days/weeks