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The combined effect of partial band jamming and imperfect channel estimation on the analysis of the performance of MC-FH/BFSK receiver over a Rayleigh fading channel is often neglected in the literature. In this study, this missing analysis is provided. The authors derive closed form bit error probability (BEP) expressions for studying the effect of partial band and broad-band jamming on the performance of a coherent uncoded MC-FH/BFSK receiver over a Rayleigh fading channel where the effect of channel estimation errors is not neglected. The considered model of the channel estimation errors does not assume independency between amplitude and phase estimates. Computer simulations are provided to validate the theoretical developments. It is shown that the smart partial band jammer should be present in all sub-bands of the system in order to be effective.