This knowledge base article explains how to exclude disputed sales invoices from the dunning letter collection process.
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Go to the Account Receivable Preferences screen.
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On the Dunning Settings tab, select By Document in the Dunning Process dropdown. This adds a Revoked checkbox to the Invoices and Memos screen.
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Save your changes.
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Go to the Invoices and Memos screen.
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To exclude a sales invoice from the dunning process, select the Revoked checkbox on the Financial Details tab.