Our company uses a material inventory system. After material is received in, it is marked with a lot number based on the date received and has a brief material description. We use adhesive labels with a barcode. Material on a pallet gets at least one tag to identify the lot. Inventory is managed...
If the plates must be flat, I would be reluctant to scrape any surface. Take a stone to the area to knock down high spots and lightly buff the area. The lower the roughness of the surface, the less likely it will be to react. Tmoose's suggestion of grease would also aid in lowering the friction.
For cross-hole deburring and interior edge radiusing, I'd recommend one of these tools: http://www.deburringtechnologies.com/
Most are suitable to CNC cycle programming which can be done in large quantities with consistent results. There are a few other internal deburring tools out there which...
