Hi Pixie66,
Thank you for sharing your experience with how your employee's pay was split. It sounds like you have the correct setup though.
We won't have any troubleshooting steps right now because we can't test it. The best thing to do is contact our QB Desktop Payroll Support so they can create a record of the current setup, 80% allocated to the first account and the rest for the second account. This way, they can immediately escalate this when the issue repeats since there is already a record on their end.
Please inform your employee that we'll have to monitor this until the next payroll. Just to set his or her expectation.
You can always go back to this thread if you have any other concerns with your payroll. Take care and enjoy your day!