Hello there, @seh88.
Thank you for posting here in the Community. I'll be glad to help you with bank reconciliation in QuickBooks.
It seems that the withdrawals of your payroll and taxes are posted directly on your bank account from your GJEs. Then you are correct that this will only post a single date even if they are posted twice.
Here's a piece of advice so your reconciliation will be perfect. Instead of posting the withdrawals directly on your bank account. change that to liability account, for example, Payroll Wage Liability or Payroll Tax Liability.
Then create an Expense or Write Check, use the liability to post your payments. This will give you the correct posting and can reconcile accordingly.
Please know that you're always welcome to post if you have any other questions about the QuickBooks service. Have a good one.