Parameters of fuel injection system, play an important role in the combustion process and, consequently, fuel consumption and emissions output. Therefore, in this study, the effects of various parameters such as Injection timing, injection during, the geometry of the injector, (the injector orifice diameter), Spray cone angle and fuel injection pressure on the performance and emissions of a DI marine diesel engine have been investigated. To evaluate the results of simulation, the maximum In-cylinder pressure has been compared with experimental data. In addition to this parameter, the experimental values of NOx, soot and brake specific fuel consumption (BSFC) have been compared with simulated results. The results of simulation show that the good agreement with experimental data.