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You can the service charge credit as a bank deposit. It'll directly hit your bank account which will be part of your reconciliation. Here's how to do it:
After that, you can go back to the Reconcile page and continue reconciling the account. You can also use this link for more information about bank deposit: Record and make Bank Deposits in QuickBooks Online.
You can also consult your accountant to see if they have other options in recording the service charge credits.
Let us know if you have additional queries about this.