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I would suggest either creating a temporary mapping for that users account, syncing the database, then deleting the user accounts from the MDB database, and deleting the temporary mapping.
Alternatively, you may be able to use MDB Builder located in either %pihome64%\MDBBuilder or %pihome%\MDBbuiler to edit the security for the modules. There should be an xla file called: MDBBuilder.xla. If in the the 32 path, then a 32 excel program needs to be used. If in the 64, then 64 bit.
This YouTube Video starting at minute 5 should help guide you on how to use the excel add-in.