What is MYOB Pay Super?
Pay Super is MYOB’s free integrated, ATO-certified superannuation clearing service. Find out more here.
Pay Super is MYOB’s free integrated, ATO-certified superannuation clearing service. It allows you to pay super contributions straight from MYOB Acumatica — Payroll, without exporting files or using an external clearing house.
This page will help you understand what Pay Super is and how it works.
Is Pay Super part of the payroll workflow?
Super is calculated automatically during every pay run.
After recording a pay run, you simply go to Super payments, select the transactions, record the payment, and authorise it.
Everything happens inside MYOB—no exporting, uploading or external systems. For more information, see Processing Superannuation Payments.
Can I submit two super payments on the same day — for example, if I have two separate pay runs?
Yes. Pay Super allows you to batch all outstanding super contributions together regardless of how many pay runs you've processed. So whether you've run one pay run or multiple on the same day, you simply create a single batch, selecting the employee contributions you would like to make — capturing all the contribution lines at once. There's no need to submit a separate payment per pay run.
If you have employees on different pay cycles, their contributions will accumulate and can all be selected in your next batch payment.
If you encounter issues submitting multiple batches on the same day, contact MYOB Support for assistance.
When was Pay Super established?
MYOB has supported electronic superannuation payments for over a decade and processes contributions for tens of thousands of Australian businesses.
Is Pay Super available with all MYOB Acumatica — Payroll subscriptions?
Yes. Pay Super is available to any MYOB Acumatica — Payroll suscription.
There are no additional fees or ongoing costs.
Who can set up Pay Super?
To set up Pay Super you need to be either the business owner, or a director who is a bank signatory.
During setup, other users (e.g., payroll officers, bookkeepers, accountants) can be assigned payment authoriser roles.
How do I register for Pay Super?
To get started, first send us an application for a Pay Super account then, once your account is ready, register it in your MYOB Acumatica site. Then you'll be ready to start making payments.
For more info, see Get started with MYOB's Pay Super service.
We only have a WPN (not an ABN) — how do we use Pay Super?
Pay Super currently requires an ABN for registration. Businesses operating under a Withholding Payer Number (WPN) — such as NDIS self-managed participants, diplomatic missions, or other entities not required to hold an ABN — are not currently able to register for Pay Super.
MYOB is working on WPN support and will communicate when this becomes available. In the meantime, WPN holders will need to manage super payments through an alternative compliant method. Speak with your advisor to determine the most appropriate approach for your situation.
Do I need an ABN to use Pay Super?
Yes. An ABN is required for Pay Super registration.
How do super updates flow through future pay runs?
When an employee’s super details are updated in MYOB:
- The changes apply automatically to future pay runs
- Past pay runs are not altered
- New contributions will be sent to the updated fund details
This ensures accuracy without needing to reprocess historical payroll.
What funds are supported and why some don’t appear?
Pay Super supports SuperStream-compliant super funds.
If a fund doesn’t appear:
- Check the fund USI
- Confirm the fund is SuperStream compliant
- Verify spelling and fund details
If needed, you can use the ATO Super Fund Lookup tool to confirm valid fund details.