This research work addressed the security problem arising from the day-to-day activities of the Nigerian Port Authority and analyzed the impact this have on the overall efficiency. The secondary source of data obtained from documented facts was used extensively for this study. The documented records was extracted and compiled from the annual financial reports of the Nigeria Port Authority, for a period of four years. And method of data analysis employed were moving averages, graphical representations, quantitative description (using operation efficiency model), and the statistical t-test of hypothesis. The operational efficiencies were estimated over a period of 2009, 2010, 2011 and 2012 with corresponding calculated values of 20.04%, 37.39%, 37.29% and 12.20% respectively.