If a late payment is incorrectly listed on your credit reports, you can file a dispute with the credit bureaus to get the payment removed. However, accurate listings will generally remain on your reports, even once you pay.
You can send a goodwill letter to your issuer explaining why you paid late and highlight your previously solid payment history, and ask the issuer to remove the late payment from your credit reports. Just know they’re under no obligation to grant this request.