I often use the update via GUI to reduce the offline time of the site.
The only problem I see in an Update all button is when you need to do the update of the docker_manager first. In this case all the buttons to upgrade the plugins are grey and unclickable because you must upgrade the docker_manager first and then rebuild the site via SSH.
In this particular case the Update all button should disappear or in any case not be clickable until the rebuild.