Amazon Pay does introduce some additional seller protections.
Of note, Amazon is the merchant of record for transactions on its marketplace. Since Amazon facilitates the credit card payment and makes the sale, the issuer first contacts Amazon for any disputes, not you or your online store. As a result, Amazon can offer payment protections with zero chargeback fees nor any liability for a chargeback, as outlined in Amazon’s Pay Protection Policy.
Unfortunately, Amazon payment protection policies only apply for Amazon chargebacks related to unauthorized transactions (typically, that refers to instances of fraud). Amazon does not extend its seller protections to service-related chargebacks, or customer disputes connected to a seller’s failure to meet the rules outlined in Amazon customer agreements. Examples of service chargebacks include product description misrepresentation, shipment failures, damaged items, and incorrect charge amounts.
Amazon will still represent you if you dispute service-related chargebacks. But if you fight a service chargeback through Amazon Pay and the issuer upholds its decision in favor of the customer, Amazon will subtract all fees from your merchant account.