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Hello @allycats,
It's awesome to hear that your customer was able to successfully pay their invoice via credit card, and it makes sense to check up on how things now work from your side of things. I can explain.
When your customer pays you through QuickBooks Payments, our system takes care of handling the funds and depositing them to the account you set up for the service both in the program and outside of QuickBooks Online. From time to time, you may find the transactions in QuickBooks Online get stuck in the Undeposited Funds account, but to take care of that, all you'd have to do is go through the manual steps to deposit the funds. This article can help: What's the undeposited funds account? If you'd like to verify or change the accounts related to Payments, simply select the Gear icon, choose Account and settings, then navigate to the Payments tab.
How it works is once the credit card payment is made, our system processes the funds, which can take 5 business days for the first transaction, and then that's reduced to 2 business days afterward. This is just to make sure the funds get to whether they need to go, and then they'll be deposited to your bank account and you'll see the deposits in your QuickBooks account. Our Common questions about payments deposita in QBO touches on this and other questions you may have about the deposits you're expecting.
If you haven't received actual funds just yet, keep an eye out for them in the coming days!
Don't hesitate if you have more questions. I hope you have a great weekend!