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Hello there, @cameron4.
Thanks for posting here in the Community. I'm here to share some information about filing your return and recording the tax payment.
To ensure I'm on the same page, I want to ask if you mean that there's a transaction representing the tax payment under Banking and trying to match it with what's already in QuickBooks?
In QuickBooks Online, after you file your sales tax return, you record the new tax payments manually, so your sales tax payable stays accurate and zeros out. You can refer to this article as it has further detailed information about filing and recording sales tax payments: File your sales tax return and record tax payment in QuickBooks Online.
I look forward to chatting with you soon. I'm always here to lend a hand and help. Have a good weekend!