You can restrict usage of payment methods and shipping methods only for members of specific membership plans. For restricted users, the specific payment and shipping methods will be hidden in checkout page.
Create membership plans by following the steps in Creating Membership Plan
In “Checkout Restrictions” tab,
From the list of available payment methods, select the payment methods which you need to restrict for the plan in “Payment Methods” option. The selected payment methods will be displayed in checkout page only for the members of the plan.
From the list of available shipping methods, select the shipping methods which you need to restrict for the plan in “Shipping Methods” option. The selected shipping methods will be displayed in checkout page only for the members of the plan.