To trigger this update manually an action to the VM such as reconfiguring, snapshot creation/removal, adding/removing/expanding a VMDK, or Clicking the "Refresh" link in the Summary tab of vSAN Datastore will update the VM storage usage to the new value.
Workaround:
Be patient as the STORAGE USAGE should refresh after several hours, if it doesn't then trigger a manual refresh as outlined in the Resolution section.