Thanks for your reply, hbscoresby@optus.

Just to confirm, do you have any transactions imported or recorded for that BAS period you're trying to record in QuickBooks Online? Please know that the steps provided here will zero out the the GST Liabilities Payable and ATO Clearing account if you have transactions recorded in QuickBooks Online and have not use the lodge BAS function. 

If there are no transactions recorded for that period, you can record the tax payment as an expense transaction and allocate it to a Taxes Paid account.

Feel free to drop a comment below if you have any other questions.