Hi there, mindraalex.

Allow me to chime in and provide some information about credit card payments to multiple invoices.

I understand how beneficial charging the card once to different customers is. However, that option is unavailable in QuickBooks Online (QBO). 

Since this is for different customers, you need to manually change the credit card on file to make a charge.

To update a customer's credit card information:

1. Go to Sales at the left pane.
2. Choose Customers.
3. Tap a customer on the Customer page.
4. Hit on Edit. If you can't see the Edit button, you need to set up the credit card payment methods in the Payment List.
5. Click on Payment and Billing under the Customer information.
6. Tick in the current card number below the Preferred payment method line.
7. Choose the + Add link in the upper right.
8. Enter the new card information, then click Save. After you save the entry, you can only view the last 4 digits of the card number.
    

To change a customer's credit card information in the sales receipt or receive payment:

1. Go to the Plus (+) icon.
2. Under customers, click Sales Receipt or Receive Payment.
3. Tap the customer.
4. Click the current card number below the Preferred payment method field.
5. Tick the + Add link in the upper right.
6. Enter the new card information, then Save.
    

You can check this article for additional reference: Edit a customer's credit card information.

In addition, I've added this article to learn how to check when QuickBooks deposits customer payments into your bank account: Find out when QuickBooks Payments deposits customer payments.

Know that my doors are always open to help if there's anything else you need. Thanks for coming, and have a good one!