There are two issues involved, naming the files and OCR’ing without waiting for each to finish before scanning the next sheet.
I use the S500M, scan to file in a desktop folder (I hadn’t thought of scanning to the import folder for EF) using the auto filenaming scheme of the S500M. This way I can scan in many bills, etc. without doing anything other than feeding the paper into the scanner.
Once done, I have the manual part - in a browser, I change the names of each file to correspond to my “template” (e.g. 09-12-30 BuyCom Visa). Then I open Acrobat Pro and do a mass OCR on all the files at once. I used to scan-rename-OCR and that slowed me down due to the OCR, but the mass OCR means I just sit back for all the files to be massaged.
Due to my file naming scheme, I don’t see a way to automate this step. For the mass OCR, that does involve talking to Acrobat Pro.