There are a couple of options to correct missing Super payments from a previous payrun.
Create a Supplementary payslip
The first option is to do a Supplementary payslip and record each employee's applicable Super amount in the Adjustments screen:
Click Super.
Double click on the Superannuation Guarantee line.
Enter the amount.
Ok to save.
Restore your database
The second option is to Restore your database to before you started your payroll, and change the Super Boundaries:
Click File.
Select Company Details.
Click Configuration.
Select Period End.
Click the Superannuation tab.
Slide the scale left to 0 days.
Click the Close icon to save.
Reprocess Payroll and Super payments should appear in the Employees' payslips and reports.