How can I reconcile a single transaction to an invoice and a bill from the same supplier. E.g. Invoice for $5000, minus bill of $2000 = $3000 transaction. Thanks.

Hi Peter, 

Thank you for reaching out on this. 

A member of our online community, Brandi has asked a similar question and here is the link to the solution:

https://quickbooks.intuit.com/community/Reports-and-accounting/Have-a-customer-that-is-also-a-vendor-The-customer-pays-my/td-p/184556

Please take a look and see if it's useful for you, and let us know if you have any questions. 

Thank you.