QB Issue Resolution:

The $50 “debt repayment” is a fee you added, so that should post to an income account, I create one called late fee income to track it easier.

Resolution for Issue 'I have a tenant that is behind on rent, so I added a $50 for “debt repayment” to his rental fee. He paid this Invoice to bring it’s balance to $0. How to apply to past?' available: Yes (Solved).
Source: Intuit Community forum.

I have a tenant that is behind on rent, so I added a $50 for “debt repayment” to his rental fee. He paid this Invoice to bring it’s balance to $0. How to apply to past?: 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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