No luck with online chat, I called them today as they close 3pm Perth time.
MYOB duplicated/re-did the ETP pay run, which filtered through to the YTD verification report.
Now, MYOB will remove the old ETP pay run, which did not filter through to the report.
I have been told this will take up to 3 days.
Once I get confirmation the old pay run has been removed, I will run reports again, (I have save the old Payroll activity, summary, register & YTD verification), and make sure they are correct.
Hopefully will have EOFY STP finalisation completed by the 14 July.