A quick and dirty fix is:
Goto Settings → Report Transformations → Single Touch Payroll Worksheet → Edit
Add a line after line 48 as shown (put cursor at the end of the line, press carriage return, paste in the line shown below)
{% assign period_W1_amount = grossPayments | map: 'Amount1' | sum %}
{% assign period_W1_amount = otherAllowance | map: 'Amount1' | sum | plus: period_W1_amount %}
And update line 147 (now line 148) from
{% if employee_otherAllowance != 0 %}{% assign employee_other_allowance_description = “Other” %}{% endif %}
to
{% if employee_otherAllowance != 0 %}{% assign employee_other_allowance_description = "JOBKEEPER-TOPUP" %}{% else %}{% assign employee_other_allowance_description = "" %}{% endif %}
Then press the update button at the bottom of the report transformation edit screen
Ensure you use a payslip item with the “ATO reporting category” and “Ordinary Time Earnings” as shown for any JobKeeper top up payments
The start / finish JobKeeper fortnight can be manually added by editing the cvs file (once only) to add an extra “Other allowance”
- Other allowance description 1 = JOBKEEPER-START-FN01
- Other allowance 1 = 0
And with values from Manager STP worksheet
- Other allowance description 2 = JOBKEEPER-TOPUP
- Other allowance 2 = year to date topup amount
Note to use 2 “Other allowances” you need to update the setting in Single touch
go to the portal website https://portal.singletouch.com.au and on the Entities->View Entities, select the Select Fields
Then change it from 1 to 2