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Trinadha K This sounds like expected behavior. It is possible for a user to be assigned as a Site Administrator for some sites, but not for other sites. User roles are set at a site level basis. In Tableau Server 9.2, If you select the individual user and go to the "Site Membership" options for that user, you should see a dropdown for "All Sites" or "Assigned Sites." You will need to verify that the user is set to the appropriate Site role for each site.
Here is a screenshot of a reproduction of the scenario you have described. Make sure to assign the user to the correct Site role for the sites they should be assigned:
I will give a try on this and update you. Thanks!