This paper examines the nexus between marine science research, science advice, policy, and national security and environmental security in the science policy problem of the West Philippine Sea. The main framework to examine this nexus is the UN Law of the Sea (UNCLOS) and relevant recent Philippine legislation, which governs aspects of marine science research in national territorial and exclusive economic zone (EEZ) waters. Marine science and fisheries research is increasingly important in diplomatic and national security doctrines of archipelagic policy and archipelagic defense. This engagement is in the realm of science advice and given the availability of scientific information, the multi-factorial nature of the problem, the inherent high-stake risks, and the management of uncertainty and values. These factors make the problem appear “wicked” or intractable. Using the post-normal science advice framework, the problem is examined under the post-normal intelligence analytical approach to determine if the WPS/SCS problem and its components are wicked or intractable or not.