Thanks for replies and the advice regarding full load with the "repair" option.
However, the setup tables in our BWQ (Test) system are not filling. We first executed LBWG with a value of 02 to delete the procurement table. Then executed OLI3BW with values for purchase orders (all orders were selected) and values for document date (all of 2012) and purchasing organisation = 1000.
However, when OLI3BW finishes, zero records are shown in SE16 against table MC02M_0ACCSETUP. I can confirm that the connected ECC6 system has records in it.
Are there any other steps required?