Disable but not uninstall Cloudron
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Cloudron is really more like an OS since it configures a lot of things on the server. For example, custom DNS server, nginx configurations, collectd configs, systemd configs etc. Disabling and changing all these services will most likely eventually break things. So long story short, there is really no way to disable it.
Maybe you can just look into taking a snapshot/create image and then restore your server later to that image?