Surveillance is a critical problem for harbor protection, border control or the security of commercial facilities. The effective protection of vast near-coast sea surfaces and busy harbor areas from intrusions of unauthorized marine vessels, such as pirates smugglers or, illegal fishermen is particularly challenging. In this paper, we present an innovative solution for ship intrusion detection. Equipped with three-axis accelerometer sensors, we deploy an experimental Wireless Sensor Network (WSN) on the sea's surface to detect ships. Using signal processing techniques and cooperative signal processing, we can detect any passing ships by distinguishing the ship-generated waves from the ocean waves. We design a three-tier intrusion detection system with which we propose to exploit spatial and temporal correlations of an intrusion to increase detection reliability. We conduct evaluations with real data collected in our initial experiments, and provide quantitative analysis of the detection system, such as the successful detection ratio, detection latency, and an estimation of an intruding vessel's velocity.