The Multiple-Input Multiple-Output (MIMO) and Orthogonal Frequency Division Multiplexing (OFDM) system is majorly affected through high Peak-to-Average Power Ratio (PAPR) values. To reduce this issue, this research proposed an Enhanced Flying Ant Colony Optimization (EFACO) algorithm which is proposed to optimize design of radar waveform in MIMO-OFDM. The Space Time Block Coding (STBC) technique is utilized for encode and decode the signal in MIMO-OFDM. In Partial Transmit Sequence (PTS), the phase factor is optimized by the proposed EFACO algorithm. The Additive White Gaussian Noise (AWGN) channel is utilized which transmit the signal from transmitter to receiver. The performance of EFACO is estimated by Bit Error Rate (BER), Symbol Error Rate (SER), and PAPR metrics. The proposed algorithm attained minimum BER of 0.01, SER of 0.02 and PAPR of 3.05 when compared to other existing algorithms like Selective Level Mapping and Partial Transmit Sequence (SLM-PTS) and Prime Learning Ant Lion Optimization (PL-ALO).