Hi NeilC1
To account for the GoCardless fees relating to the transactions you have already added to QuickBooks, you will have to save the payments of the invoices to the undeposited funds account > create a bank deposit > select the invoice payment/s relating to the net amount you have received into your bank > in the add funds to this deposit section/account column select/create a GoCardless fee account and enter in the amount column in a minus figure the amount of the fee taken by GoCardless. When you select save and close the net amount will then be populated in the bank account and you will then be able to match the amount in the for review section of your banking page.
When you then add the GoCardless app QuickBooks will undertake the above automatically but only from the point of connection onwards.
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