QB Issue Resolution:

Sales receipts will show as deposits in QuickBooks which you can link with the unpaid invoice. Let’s follow the steps below to link the two transactions:

Find the deposit:

  1. Click Accounting on the left pane.
  2. Select Chart of Accounts at the top.
  3. Find the account you deposited the payment to, then select View Register (or Account History).
  4. Locate and choose the correct deposit.
  5. Select Edit.

Edit the deposit:

  1. In the Received From column, choose the correct Customer’s name.
  2. Choose Accounts Receivable (or Trade and Other Receivables), in the Accounts column.
  3. Select Save and close.
  4. Select the Plus icon (+) at the top.
  5. Click Receive Payment.
  6. Choose the Customer’s name.
  7. Put a check in the boxes next to the correct invoice and deposit.
  8. Mark the Amount Received as zero.
  9. Update the Payment date.
  10. Select Save and close.

Here’s an article for more information: Link a Deposit to an Invoice.

Resolution for Issue 'I accept payment via Gopayment using a customer’s CC. Mobile app automatically creates sales receipt & number. How do I apply the sales receipt to the invoice?' available: Yes (Solved).
Source: Intuit Community forum.

I accept payment via Gopayment using a customer’s CC. Mobile app automatically creates sales receipt & number. How do I apply the sales receipt to the invoice?: this issue or error code is a known issue in Quickbooks Online (QBO) and/or Quickbooks. Support for this issue is available either by self-service or paid support options. Experts are available to resolve your Quickbooks issue to ensure minimal downtime and continue running your business. First try to resolve the issue yourself by looking for a resolution described below. If it is a complex issue or you are unable to solve the issue, you may contact us by clicking here or by using other support options.

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