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, and only one of these approaches can be enabled at a time.
Syncing discounts to the Subtotal field
By default, MyWorks will sync discounts in the Shopify order to the Discount "subtotal" field in the QuickBooks order. No settings have to be adjusted in MyWorks to accomplish this.
Syncing discounts within each line item
Instead of syncing all order discounts to the Subtotal field, MyWorks can reflect the discount within each line item in the order in QuickBooks, for cases where the discount in the Shopify order is reflected in one or more of the line items in the order. This would show each of these line items in QuickBooks as the “net” amount after the discount.
Syncing discounts as a separate line item
Alternatively, MyWorks can sync discounts in the order to a separate, negative, line item in the QuickBooks order. If there's multiple coupons in the Shopify Order, each coupon would have its own negative line item in the QuickBooks order. This can be enabled with the below setting in MyWorks Sync > Settings > Order.