MyWorks supports syncing Shopify orders that contain discounts to QuickBooks Desktop in several ways. These can be controlled in MyWorks Sync > Settings > Order in our app in Shopify.
Syncing the discount as a separate line item
By default, MyWorks will sync discounts in the order to a single line item in the QuickBooks order. This line item can be set in MyWorks Sync > Settings > Default, as the Default Discount Item.
Syncing the discount within the line item
For cases where the discount in the Shopify order is reflected in one or more of the line items in the order, MyWorks can reflect the discount within each line item in the order in QuickBooks, showing the line item in QuickBooks as the “net” amount after the discount.