The addition of soybean methyl ester (SME) to diesel fuel has significantly reduced HC and PM emissions, but it increases the NOx emission slightly when measured with exhaust emission evaluation mode for heavy-duty DI diesel engines or D-13 mode in Japan. Also, under partial load conditions, the SME addition increases the PM emission due to an increase in the SOF emission. However, the addition of lighter fractions or kerosene to diesel fuel reduces NOx and PM emissions but increases HC and CO emissions measured by D-13 mode. In addition, under full load conditions, the lighter fuel seldom reduces PM emission. Therefore, the exhaust emissions emitted from the blends of SME, kerosene, and cetane improver to low sulfur diesel fuel are evaluated using the latest DI diesel engine with a turbo-charger and inter-cooler. The clean fuel reduces over 20% of PM under a wide range of engine conditions including D-13 mode without an increase in NOx, HC, and CO emissions. The PM emission reduction by SME is mainly dependent on a decrease in the aromatic content replaced by SME and the effect of oxygen in the fuel.