Maybe you should try looking at pages 37-42 which defines 13 different categories of suspected terrorists. I fail to see why you don't think this is relevant.
The section that talks about how people should be removed from the list is short (less than a page), and basically says "we should look into it if someone complains". There is no mention of court procedures [...]
That's because this is administrative guidance. The executive branch isn't part of the judicial branch. Agencies don't make rules about court procedure, the judiciary does. You're conflating two completely separate branches of government.
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Let me give you a super-quick civics lesson on US government, just so we're on the same page.
The Legislative branch consists of the House & Senate, aka Congress. The main thing it does is produce Statutory Law.
The Executive branch is headed by the President and includes all the various agencies of government. Agencies which are tasked by Congress with carrying out various tasks are required to promulgate rules and establish internal procedures (such as guidance in the implementation of the rules) for their own governance. These rules and procedures make up Administrative Law.
The Judicial branch resolves controversies between other branches of government, between the states and the federal government, and so on. Court decisions can cite statutory law, administrative law (if the case involves the operations of a government agency), common law (loosely, a set of legal traditions), and precedent established by higher courts. New precedents are sometimes referred to as judicial law.
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Now, statutory law might define which matters fall within the purview of the courts, and there's a great deal of judicial law addressing how legal disputes should proceed through the courts, but I wouldn't expect to find such things discussed in an agency guidance document. Obviously I'm only describing the very tip of the legal iceberg here, but there seem to be some very basic misconceptions in this thread about how the government functions.