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These works describe the implementation of a control unit which is an important part of Central Processing Unit (CPU) with the Field Programmable Gate Array (FPGA). In this work a frequency scaled and thermal aware energy-efficient control unit is designed with the help of 28 nanometer (nm) technology based FPGA. Frequency varies from 100MHz to 5GHz and the rise in frequency also gives rise in power consumption of control unit with FPGA. The thermal properties of FPGA also increase with increment in frequency. This whole experiment is done on Xilinx 14.1 ISE Design Suit and it is observed that lower the frequency, lower will be the power consumption of FPGA.