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Superannuation was paid twice for a pay run How can I fix this?

Author Samantha Haigh@Microkeeper
Category Superannuation
Last Modified 02/09/2025

This can happen if the payment period you selected for a Superannuation payment inadvertently included a pay run for which super has already been paid.

There are two ways to resolve this:

  1. Contact the Super Funds: The most direct method is to individually contact the superannuation funds involved and request a refund for the duplicate payment.
  2. Adjust in a Future Pay Period (using negative super figures):This method involves creating temporary negative super figures in your payroll system to offset the overpayment in a future super payment.

Process for Option 2 (Adjustment in a Future Pay Period):

  1. Identify the Double Payment: Determine the exact amount that was overpaid.
  2. Create an Ad-hoc Pay Run: In an upcoming super period that has not yet been paid, create an Ad-hoc Pay Run with a payment date within that period.
  3. Do NOT Send Reports: It's crucial not to send or make any reports using this data, as your payroll data is currently incorrect.
  4. Add Negative Super Amounts: Apply the identified overpayment amount as a negative super figure to this Ad-hoc Pay Run, using the "Add Super" button.
  5. Pay the Super: Proceed with paying the superannuation for this adjusted period.
  6. Remove the Ad-hoc Pay Run: Once the Superannuation is paid, delete the Ad-hoc Pay Run that contained the negative super amounts.
  7. Data Accuracy: Your payroll data should now be accurate again.