Markup Pricing allows you to set up pricing rules to add margin/markup to the products you push to Shopify. Connectr will multiply and/or add a fixed markup to the original Amazon price by the numbers you set in the Markup Settings page.
On enabling Markup Pricing it will be applied to all new products you push to Shopify then onwards. If Sync is activated all the products will be updated as per your Markup Pricing rules.