STP and EOFY not balancing

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Experienced Cover User
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Experienced Cover User
Experienced Cover User




STP and EOFY not balancing

Hi having trouble balancing EOFY and STP.  

I cant get the payroll register to balance to the single touch payroll report. I am out by $43,742.81

I can account for the difference, for example one staff member is out by $31,250 which is his motor vehicle allowance. The ATO reporting category I have selected is Gross Payments.

The balance of $12,492.81 is the deductions column on the payroll register report (salary sacrifice super). The ATO reporting category I have selected is RFBA.

I have processed several zero pay runs to update figures to no avail. Any suggestions?


MYOB Moderator
4,467 Posts
MYOB Moderator
MYOB Moderator




Re: STP and EOFY not balancing

Hi @Lee13


Thank you for your post. If the car allowance is required to be reported as an Allowance you will need to change the ATO reporting category as per this help article and then process a $0 pay to update STP.

If you're not sure about the correct ATO reporting category please do check with your accountant. 
I would also check the setup and ATO reporting category for the salary sacrifice to ensure it is being reported correctly.

If the figures are still incorrect after doing the $0.00 payrun I would recommend going through the following: 

In AccountRight there are three main reports that we recommend you use when reconciling payroll:

  • Payroll Activity Summary 
  • Payroll Register Summary
  • YTD verification report


Do the Payroll Activity and Payroll Register reports match?

  • If the answer is NO, this generally indicates that a manual adjustment has been made in Pay History in the employee card. If this is the case, you will need to change the Pay History back to what it was and process any changes/adjustments through Process Payroll. Then process a $0 pay to update STP.


  • If the answer is YES, this generally indicates that the issue is being caused by ATO reporting categories that have not been assigned correctly or by payroll categories that have exempted from PAYG Withholding in error. Follow these steps to find and fix the issues:
  1. Run the Payroll Activity Detail report to narrow down which payroll categories are causing the problem.
  2. Check that the correct ATO reporting category has been assigned. Change the ATO reporting category as required.
  3. Check if the payroll category has been ticked exempt from PAYG in error (payroll categories>>open the category>>click on the Exempt button). Untick PAYG Withholding and click Ok.
  4. Once you have made the necessary changes to the payroll category, process a $0 pay to update STP.


Some other really useful reports that can help with EOFY are:

  • Payroll Activity Detail - gives a breakdown of payroll categories per employee
  • Summary of Payments - this is the individual employee version of the YTD verification report, it's similar to the old payment summary
  • Payroll Summary - gives a breakdown of the payroll categories 

Where do you find these reports: 

  • Activity (summary and detail) and Register are found in Reports>>Payroll tab>>Employees
  • YTD verification is found in the Payroll Reporting Centre>>EOFY finalisation tab
  • Summary of payments is found in the Payroll Reporting Centre>>EOFY finalisation tab>>click on the ... button for the individual employee
  • Payroll Summary is found in Reports>>Payroll tab>>Payroll Categories

Please do let us know if you have any further questions. 


If my response has answered your enquiry please click "Accept as Solution" to assist other users find this information.


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