A method of processing documents by receiving at least a batch of documents and a separator card in a document processing device. The separator card includes a conductive material disposed on one side, and a barcode indicative of the source of the batch of documents. The documents and separator card are transported via a transport mechanism past an evaluation unit and a field-effect sensor, respectively. The document processing device evaluates each document, determines whether the document meets or fails predetermined criteria, and detects the presence of the conductive material when a separator card is transported past the sensor. The source identification information from each separator card is entered into a memory of the document processing device. Feeder operation is paused between each batch to verify that the previous batch closed successfully. Pausing feeder operation to address document anomalies before subsequent batches are processed promotes batch integrity and reduces operator confusion.