New ATO Payday Super rules take effect from 1 July 2026.
These rules require all Australian employers to pay super at the same time as wages, with contributions required to reach employees' funds within 7 business days.
To support this, the new Payday Super Assist integration can automatically handle your super payments through the SuperChoice clearing house each time you submit a pay run.
For more information, or to enable the Payday Super Assist integration in your HR system, please contact your account manager.
If you decide not to use the Payday Super Assist integration, you will need to set up and manage your own clearing house.
Setting Up Payday Assist
How do I set up the Payday Assist integration?
Instructions about how to enable the Payday Super integration and set up your SuperChoice account will be provided once it has been approved for your account.
Once the SuperChoice integration is approved, you will need to:
- Update to the newest version of HR
- Register and set up your account with SuperChoice
- Go to [www.employerpay.com.au/EmployerPortal/register/custodian/megabus](https://www.employerpay.com.au/EmployerPortal/register/custodian/megabus](http://www.employerpay.com.au/EmployerPortal/register/custodian/megabus)) and follow the provided Employer Self Enrolment user guide
- Enable Payday Super Assist integration in HR
(following the provided Payday Super Assist Set Up guide)
Megabus recommends using your primary payroll email address as the user name when signing up to SuperChoice (step 9).
Changing to SuperChoice
How do I change to the SuperChoice clearing house?
If you decide to use the Payday Super Assist integration, you will need to go to [www.employerpay.com.au/EmployerPortal/register/custodian/megabus](https://www.employerpay.com.au/EmployerPortal/register/custodian/megabus](http://www.employerpay.com.au/EmployerPortal/register/custodian/megabus)) and follow the provided Employer Self Enrolment user guide to enrol your business.
Employee Details
Do I need to manually enter my employees' super fund details into the SuperChoice portal?
No, the Payday Assist integration automatically enters the data in the SuperChoice portal when you finalise a pay run.
However, if a new employee with the generic Funded Super fund is included on a pay run, you will need to enter their details and pay their super manually, using the SuperChoice portal.
When to Change Clearing Houses
When should I change clearing houses?
If you are using the Payday Super Assist integration, you should switch over to SuperChoice immediately.
You must also set up the Payday Super integration with SuperChoice before commencing the first pay run for the new financial year, so that the super payment file can be automatically submitted.
Switching From Other Clearing Houses
How do I switch to SuperChoice from another clearing house?
Switching to the Payday Super integration with SuperChoice will replace your previous clearing house:
- The previous clearing house registration will no longer be used
- Employee super contributions will continue to be paid into the same funds
If there were costs associated with the previous clearing house:
- Contact the provider and advise them of the change
Not Using SuperChoice
What if I don't want to use SuperChoice as my clearing house?
If you decide not to use the Payday Super Assist integration, then nothing will change for you.
You will still need to generate the superstream file and manually upload it to your clearing house of choice.
Uploading to Other Clearing Houses
How do I upload my super payment files to other clearing houses?
See the Superstream help guide for further information about generating and uploading superstream files.
Rejected SuperChoice Submissions
What if SuperChoice rejects my Superstream submission?
If a super payment file is rejected, SuperChoice will automatically send an email to the address registered in their portal, with details of the error (e.g. an incorrect super fund USI).
After correcting the information in HR, you can generate a corrected super payment file for that pay run and have HR send it to SuperChoice.
how?
Employee Rejections
Your employees can still reject a payment after it has been sent to and paid by SuperChoice (e.g. due to an incorrect Fund Member Number).
In this case, you need to correct the information in HR to ensure submissions from future pay runs are accepted and manually re-process the rejected payment using the SuperChoice portal.
Employees Without Super Funds
What if I don't have super fund details for an employee?
Employees cannot be included in the SuperChoice payment file without complete fund details.
If fund details are not yet available:
- Remove the employee from the current pay run by unticking them
- This allows other employees to be paid
- Once their fund details have been entered in Employee Maintenance:
- Run a separate pay run for that employee for the same period
- This will generate a SuperChoice submission for that employee's super payment
If the pay run cannot be delayed:
- Assign a generic fund that is not ticked for inclusion in the SuperStream payment file (e.g. Funded Super)
- This allows the employee to be paid and their super to be calculated
- You will then need to manually pay their super via the SuperChoice portal for each affected pay run until correct fund details have been entered
Their super must still be paid within 7 days.
482 Visas
How do I process employees on 482 Visas?
Employees on a 482 visa are set up the same as other employees.
To configure super for a 482 visa employee:
- Open their Employee Maintenance record in Edit mode
- Click on the Entitlements tab
- Tick the Apply Compulsory Rate checkbox
- Enter any Additional Rates, if required
- Add their Super Fund and Member Number
Earnings and allowance types must be configured as Qualifying Earnings (formerly OTE):
- Any hours or payments entered against these types will be included in the super calculation.
- They will also be included in the SuperStream submission sent to SuperChoice, for payment into the employee's selected fund.
ATO SBSCH (Small Business Super Clearing House)
What if I was previously using the ATO SBSCH for super payments?
The ATO is permanently removing access to the SBSCH at 11:59pm on June 30.
Before then, you need to either:
- Activate the PayDay Super integration and sign up with SuperChoice
- Or, sign up with a different (manually managed) clearing house
Megabus also recommends downloading your transaction history from the SBSCH before then, since it will be required for future audits and any employee queries.
April–June Super Submissions
How should I process superannuation submissions for the April–June period?
You have until July 28 to make superannuation payments for the April–June period through your previous clearing house.
If you have been processing super payments through a different super clearing house, we recommend generating the Super Report and/or payment file as usual after processing the final pay run for the 2025-26 financial year.
Do not wait until June 30 to activate the Payday Super integration.
As soon as you activate the integration, you will be able to automatically submit and pay all super payments for any outstanding pay runs from the 2025-26 period using SuperChoice.
If you have been manually submitting super payments using the ATO SBSCH (Small Business Super Clearing House), you will lose access to it permanently from 11:59pm on 30th June 2026 and be unable to make any corrections.
For this reason, the ATO recommends that you use your new clearing house for June submissions instead of the SBSCH.
