Global warming due to engine exhaust pollution and rapid depletion of petroleum oil reserves, has given us the opportunity to find bio fuels as alternative to diesel fuel. Biodiesel is an oxygenated, sulphur free, non-toxic, biogradable and renewable fuel. Karanja biodiesel is prepared using Karanja oil and methanol by the process of transesterification. In the present study, a military 720 kW turbo charged, compression ignition diesel injection (CIDI) engine was fuelled with diesel and Karanja oil methyl ester (KOME) biodiesel respectively. These were subjected to 100 hours long term endurance tests. The performances of fuels were evaluated in terms of brake horse power (kW), torque, heat release rates and specific fuel consumption. The emission of carbon monoxide (CO), unburnt hydrocarbon (UHC), oxides of nitrogen NOx and smoke opacity with both fuels were also compared. Lubricating oil samples, drawn from the engine after 100 hours long term endurance tests, were subjected to elemental analysis. Atomic absorption spectroscopy (AAS) was done for quantification of various metal debris concentrations. Use of Karanja oil methyl ester (KOME) biodiesel in a turbo charged CIDI engine was found compatible with engine performance along with lower emission characteristics (UHC 70%, CO 85.6%), and exhaust noise 11.9% but 13.7% higher NOx emissions. Engine metals wear were found 32% lower for a KOME biodiesel operated engine.