After adding the shopify channel to quickbooks online, I'm now seeing everything from Shopify duplicated in the commerce section of quickbooks. How do I fix this?

Welcome to the Community, @danielallenruss.

If you have identical products in QuickBooks Commerce and your Shopify has different SKUs, duplicate products will produce. To remove a duplicated product, you need to delete the product in Shopify or disable the product sync in QuickBooks Commerce.

If you're referring to the duplicated transactions reflected in QuickBooks Online from Shopify, here's how to exclude them from the banking page:

1. Go to Banking, then select the transactions in the For review tab.
2. Select Exclude.
3. Go to the Excluded tab, then locate the duplicated transactions.
4. Select Delete.

If you need to manage or edit your Shopify in QuickBooks Online, you can refer to this article:  Shopify and QuickBooks Online Integration Guide.

You can also use these articles as a reference to learn how to categorize your transactions and accurately reconcile your accounts:

• Categorize and match online bank transactions in QuickBooks Online.
• Reconcile an account in QuickBooks Online.

Let us know how else we can help with your duplicated transactions. We're available 24/7.  Have a great day!