ThriveCart gives you the tools and flexibility to handle all your refunding from directly within the system.
You can find more about issuing refunds on transactions here.
If you circumvent the system and act directly within your payment processor, we cannot guarantee that every relevant action will trigger and report back to your ThriveCart account.
So that your reporting remains accurate and your behaviour rules trigger appropriately, we strongly advise using the tools built directly within ThriveCart to handle your refunding.
If you have any questions please contact the friendly support team with your question.