The folders from $additionalFolders appear in Outlook, but it is not possible to remove them using "Shared Folders" dialog in Outlook with KOE. Z-Push should check folder's origin and silently ignore FLD_ORIGIN_CONFIG folders or add them to the list if they are not there.
In order to reproduce there should be more than one folder in $additionalFolders.
However a folder from $additionalFolders will probably be added to the hierarchy on the next hierarchy sync unless there is some detection if the folder was removed via Webservice.
Reported at: https://servicedesk.kopano.com/browse/KS-38321