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During Checkout Shopify States That a Product is out of Stock or is Unavailable when it Currently has Stock

If you are seeing this message for variants that have stock, double check to see if the product is set to "not visible" in the edit product page in the Shopify admin.  Shopify will not let you check out with products that are set to not visible.  If you need to have a product available through the app but not on the store front, one solution would be to use the duplicate and hide feature of our Product Discount app.  This functionality will create a duplicate of a product (at a discount if desired), and will hide the duplicate on the store front without having to set it as not visible.  Then the original product can be set to not visible and the duplicate can still be used through the app.

 
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