Set up new policies
Sophos Central Migration Tool doesn't migrate your Sophos Enterprise Console policy settings.
Instead, it applies the default Sophos Central policies.
If you don't want those policies, set up custom policies in Sophos Central before migration and apply them to the computer group you'll migrate computers to. This ensures that computers get the right policies as soon as you migrate them.
Computers are placed in Sophos Central groups by the migration tool's Preserve Group Layouts option (which is off by default), or by Sophos Central AD Sync.
Alternatively, you can create and apply custom policies after you migrate computers.