There does not appear to be a particular best practice regarding short payment of vendor invoices. We have heard of companies doing the same practice that you described and we have also heard of others still paying from the original invoice but documenting why the amount was short paid. It seems to depend on the company's philosophy with incorrect vendor invoices, how important the vendor is to the business operations and how quickly the company wants to pay for services or products delivered. In the AP Templates section of the site, we have an example of a short payment memo that can be used to document the reason for a short payment on an original invoice and include it with the payment. Also see Ask the Expert best practices FAQs.
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