Currently the only options to sync orders from Shopify to Quickbooks online is using Invoices or Sales Receipts. It would be great to have them entered into Quickbooks as Estimates. Our system is set up that we use estimates that then go to our warehouse. When the warehouse completes shipment they respond and convert that Estimate into an invoice. All the fields are the same as Invoice so it shouldn't be that hard to add estimates as an option.
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