QB Issue Resolution:

Your credit card statement should show the batch of card receipts for the day.  How you post depends on the granularity you want to keep in QuickBooks (QB).  If you want to track each customer, then you should post each sale through the Sales Receipt.  At the end of the day, you would “Make Deposit” selecting the individual sales that made up the CC daily entry.  If you don’t care about tracking individual customers (since you probably don’t have many repeat sales, simply “Make Deposit” and enter each sale on a separate line of the deposit.  You can put in the customer’s name, but QB will not tie it back for customer history.  Deposit to the “bank” Credit Card.  When that money rolls into your checking account, you can do a Banking > Transfer funds to move the money from Credit Card to checking account.  You can do the same with PayPal, treating it as a “bank”.

As far as the CC/PayPal fees, if you know them for each transaction, you can record them as a negative on the Sales Receipt.  Mostly, though, they are a separate item for each day.  In that case, simply “Write Check” to the appropriate agency for that day’s fees.  The fees would be a COGS as they are the cost of selling the goods.

Resolution for Issue 'What are more efficient ways of recording online sales in Quickbooks?' available: Yes (Solved).
Source: Intuit Community forum.

What are more efficient ways of recording online sales in Quickbooks?: this issue or error code is a known issue in Quickbooks Online (QBO) and/or Quickbooks. Support for this issue is available either by self-service or paid support options. Experts are available to resolve your Quickbooks issue to ensure minimal downtime and continue running your business. First try to resolve the issue yourself by looking for a resolution described below. If it is a complex issue or you are unable to solve the issue, you may contact us by clicking here or by using other support options.

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