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In this study, an innovative system was designed to cool exhaust gases to be used in exhaust gas recirculation (EGR) systems of diesel engines. The designed system uses a 12 V electric pump and fan. PID (Proportional Integral Derivative) controllers are designed for these elements and optimization method is used for the controller parameters. For the amount and temperature of the gases entering the intake manifold, their effects on engine NOx and brake specific fuel consumption (BSFC) under different acclimation conditions were analyzed. A mathematical model was developed using databased methods. The reference EGR flow rate and temperature value for different engine operating conditions have been defined for the control system designed thanks to the obtained mathematical model. The compatibility of models defined with Adaptive Neural Fuzzy Inference System (ANFIS) with real data was statistically analyzed. [ABSTRACT FROM AUTHOR]