Hi there, @platinumedition.
Thank you for getting back into this post and giving some more details. We're able to confirm that the issue is not related to your third-party application. Let's work together to fix this!
Creating a deposit in QuickBooks should only show one entry. However, since you're still getting the double transaction on your register though it's a regular deposit, I recommend contacting our phone support. They'll be able to initiate a screen sharing session to better investigate the cause of this.
Here's the link on how and when to contact them:
- Visit this link: https://help.quickbooks.intuit.com/en_US/contactus.
- Select QuickBooks Mac Desktop.
- Select the issue/topic.
- Click the Get Phone Number button to see the support number.
And of course, I’m here to help you if you have other concerns. Please also keep me posted on how the call goes. I'd like to make sure this is taken care of.
I went ahead and created Shopify as a customer, made a sales receipt and recorded the transaction to undeposited funds then went ahead and made the deposit from the undeposited funds.