The effect of efficient and effective port system on the economy viability of any nation cannot be over emphasis. This study investigated factors that could be termed as delay causative factors in Nigerian ports industry using TIN CAN Island port complex as a case study. A well-structured questionnaire was developed for this research and 72 respondents, who are port users (custom officers, employees, and customers), were asked to rank the variables perceived to be causing delay at the port according to their respective perception of the effect of each factor on delay factors at the port. The validity of the research instrument was done using Cronbach Alpha. There are several factors that were thought to be working together in reducing efficiency in Nigerian ports and these factors were analyzed using factor analysis method. It was discovered from the analysis that Lack of Government Authority, Ullage Constraint, Inadequate Berthing, Logistics Delay, Financial Constraint and Equipment Breakdown are major factors that cause delay at Tin Can Island Port Lagos. These highlighted factors should be paid special attention in order to reduce delay in Tin Can Island port which will in turns lead to more revenue for the country.