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It is possible that the data was transferred twice to GL. I would recommend reviewing Note 1360690.1, Master GDF Diagnostic (MGD) to Validate Data Related to Invoices, Payments, Accounting, Suppliers and EBTax. The MGD script will look for known issues and give you information on generic data fixes that you can run and will identify if you are experiencing any known issues with the GL Transfer.
Ok. Let me run the script and see how it goes.