Hi Tony H,
If you're required to lodge your pay run with ATO, make sure that Closely held employee option is not enabled on your employee.
Here's how you to check:
Once done, you can try to check again and lodge the pay event with ATO.
You may check on this article for your reference: Create and lodge a pay event.
Please reach out again if you have any other questions. Have a great day.
If the first answer does not rectify the problem them I would just simply unlock the payrun and delete it. Start the same payrun again and you may find you problem is solved. Quickbooks can still be a little clunky in areas sometimes.
Thank you, Queanbeyan Bookkeeping.
Also, you may try to check on the previous pay event lodged if Is Final option is selected. Once this option is selected, the employee will no longer be showing up in the pay event as the system has considered that this is already the final pay run of the employee for the specific financial year.
Let us know if you need any help, Tony H.