Shipping fees are added to the latter part of the order, as they are not paid with the deposit. The shipping method can be selected by the administrators or by users in the cart page. This can be set with the “Shipping Handling” option, in YIT Plugins -> Deposit and Down Payments.
About shipping fees you can:
- Use the default shipping method (the first active one of the list in “WooCommerce -> Settings -> Shipping”
- Select the shipping method among those already activated
To let users decide which shipping methid they want to use, you have to select the “Show shipping selection form to users on single product page” option. In this way, in the product page users will find the related selection form.