In recent years, the cargo transport process has improved mainly in the areas of logistics efficiency and documentation handling. The World Trade Centre terror attack in 2001 changed the world and with it the conditions for logistics world-wide. The logistics consequences were according to[1]: It is instructive to note that these disruptions were not caused by the attack itself, but rather by the government’s response to the attack: closing borders, shutting down air traffic and evacuating buildings throughout the country. The aftermath to the attack brought needed attention to the vulnerability of modern supply chains. Supply chain vulnerability reflects sensitivity of the supply chain to disruption [2]. This vulnerability can in many cases be described as “unwanted effects” in the supply chain caused either by internal or external forces that create disturbances larger than the supply chain is designed to handle. The objective of Supply chain security is to prevent antagonistic threats from affecting the supply chain performance. Antagonistic threats and other risks and uncertainties are demarcated by three key words: deliberate (caused), illegal (defined by law), and hostile (negative impact for transport network activities) [3]. This chapter presents first the major antagonistic threats to the supply chain and secondly how these threats should be prevented. This leads to the current development of different supply chain security programs.