The documents are written as files by the ScanSnap Manager application (if you set it to use PDF in its preferences), then they are handed to DTPO whereupon they are OCRed. The original files will not be deleted by our software.
You could set up the ScanSnap Manager preferences to save the files to Library > Caches > Temporary Items, in that case they will be removed for you when you log out and back in.
There is an option in ScanSnap Manager Settings (File option > Option…) which allows you to choose between scanning to a multipage PDF or as individual pages PDFs. I just tried it and can confirm that it works as described.
When you say “they are handed to DTPO” … is it because DPTO looks in the folder where the ScanSnap Manager dumps the PDFs into? If so, how often does it do this? And when it does do it, does it just OCR and import the PDF in and thus, you can delete the original? Or does it make a duplicate of the original PDF, then OCR that PDF (which leaves you with three copies) ?
No, the ScanSnap Manager writes those files in a folder and notifies our application. Through OCR a new file will be created and imported. The originals from the ScanSnap Manager application are not deleted.