Welcome aboard to the QuickBooks Community, @steve-leyland.


You can record the VAT payment, then find a match in the Banking page for the downloaded transaction to avoid duplication.


To find a match, here's how:

  1. Click Banking in the left menu, then go to the Banking tab.
  2. Go to the For Review tab.
  3. Locate the VAT payment.
  4. Click the Find Match button.
  5. Then, select the possible transactions that match the payment.
  6. Hit Save.

For more information, please check out below articles: 

However, if you're unable to find a match, then you can exclude the downloaded bank transaction in the banking page. 


If you have any questions or additional clarifications, let me know. I’m here to help. Have a good one!