Hi,

As the instructions in the online help suggest, create Sales or Purchase invoices for the GST amounts that were claimed.   Check the journal entries by pressing control-J to make sure you have the proper amounts entered.

i.e.

Sales invoice for refund:

   Amt          Account

   $xxxxx     2310   GST Paid

   - $xxxxx   2315   GST Collected on Sales

Also create a sales invoice for the amount of interest that was paid by CRA.  

I would create a separate receivable invoice for each return filed, so as to have a clearer audit trail.

I hope that helps, please post back and select any suggested answer that helped you.

There may have been interest paid on the refund amount and will show as such on the refund notice. If so then the difference would go into an interest revenue account..