QB Issue Resolution:

create a dummy bank account called clearing

receive payment on the customer invoice and deposit to the clearing bank

Use paybills, pay a partial amount to the vendor bill from the clearing bank, then pay the bal due when ready

Resolution for Issue 'I have a customer who is also a vendor. How can I receive payment of their invoice and apply that amount to reducing my open payable with the company?' available: Yes (Solved).
Source: Intuit Community forum.

I have a customer who is also a vendor. How can I receive payment of their invoice and apply that amount to reducing my open payable with the company?: 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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