If you’re creating and sharing invoices in FreeAgent you'll need to go to FreeAgent to mark an invoice as paid.

Mettle shares your transactions with FreeAgent when they have cleared, but we're not able to automatically match a payment to a FreeAgent invoice.

FreeAgent have a guide on marking invoices as paid here.

If you're having problems with FreeAgent invoices you should contact FreeAgent support at support@freeagent.com

If you’re using invoicing in the Mettle app and you’re unable to mark an invoice as paid, please contact us via in-app chat.