Schedule discrepancies are shown on the timesheet after removing the schedule template from the User profile
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The Schedule template has been removed from user's profile but still the discrepancies show up on the timesheet.
This issue is related to Permissions. In the edit permission page, click on the (+) sign beside Scheduling and uncheck the option 'View Schedule Discrepancies on Timesheet'.This will resolve the issue as this option usually causes the discrepencies to show up on a timesheet even if a "blank" default template has been assigned.