Civil courts have been able to exercise significant control of your life, including extended imprisonment without due process, for longer than these lists have been in effect. Frankly Americans have a lot fewer rights than they think they have, including the non-right of due process for being on a government list.
Edit: To pre-empt some comments I know are coming, civil courts do not require due process in the way you probably think of due process: a civil court can act against you without giving you representation, without allowing you to have representation, without you present, in secret from the public, and even without notifying you
EDIT2: While I'm soapboxing I'll note the power the civil court has over you isn't much different than the power three-letter agencies have over you (since they are usually given very broad mandates), it's just that civil courts have been around so much longer it's a good retort to people thinking they used to have rights. Whatever three-letters can't do to you is generally picked up by similar state agencies.