When placing an order using the shortcode checkout, the checkbox fields registered as part of the Additional Fields API are shown on the order confirmation despite not being shown in the form.

This is because we have special logic to show the a value for unchecked checkboxes (rather than just keeping them hidden like we do for other empty fields).

To solve this we could check the $order->get_created_via() value and only show them if it were created via store api.