Separate download settings for apps (Mainly Flatpaks)
Tested with Gnome Software 3.36 on Silverblue 32.
In the update preferences there is an option for automatic updates. However even with this clicked, there will be flatpak updates listed on the Updates page and you need to click "update" next to the app or "update all".
In this scenario it would be useful to have automatic updates for the flatpak apps, maybe as a separate preference.