Under the edit > preferences (windows) or Filemaker > preferences (mac)
There is a "Notify me when a new version is available" setting you can uncheck.
I believe you can toggle this in the assistedinstaller.txt file to change it on-install. Else it defaults to checked.
You'll have to open filemaker manually to change the setting.
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Also uncheck the "notify me of updates" checkbox in the same area, as if you're running this automatically, then the same would happen with update notifications.