QB Issue Resolution:

We definitely need to be able to print an invoice with the credit that is applied to it. You’ll be happy to hear that it’s really easy to do this in QuickBooks!

Here’s the steps we’ll want to take:

Select the Invoice.
Chose Formatting.
Click Customize Data/Layout.
Select Footers.
Payments/Credit needs to be checked under the Print column.
Click Ok.

Let’s try those couple ideas and see if they help. I’ve got my fingers crossed for you!

Resolution for Issue 'Credit applied not reflected on invoice' available: Yes (Solved).
Source: Intuit Community forum.

Credit applied not reflected on 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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