Hi Valy
Thanks for your post and Welcome to MYOB Community Forum.
Sorry for the delay in response.
If the YTD Verification Report doesn't match the Payroll Summary Report is because all the wages that are reported as Gross Payments will only show in YTD Verification Report. Under the EOFY Finalisation tab, against the employee name, there are three dots there that will show the Individual Summary Payments as the breakdown of other pay items that are not reported as Gross Payments. If you add these Gross YTD to the Verification Report, everything should match.
Also. regarding what ATO Reporting Category to assign for each pay item, it is best to speak with your accountant or financial advisor as we are not permitted to provide financial advice.
Please let me know if you need further assistance.
Best regards,
Doreen