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Complex quantum systems and their various applications are susceptible to noise of coherent and incoherent nature. Characterization of noise and its sources is an open, key challenge in quantum technology applications, especially in terms of distinguishing between inherent incoherent noise and systematic coherent errors. In this paper, we study a scheme of repeated sequential measurements that enables the characterization of incoherent errors by reducing the effects of coherent errors. We demonstrate this approach using a coherently controlled Nitrogen Vacancy in diamond, coupled to both a natural nuclear spin bath (non-Markovian) and to experimentally controlled relaxation through an optical pumping process (nearly Markovian). Our results show mitigation of coherent errors both for Markovian and Non-Markovian incoherent noise profiles. We apply this scheme to the estimation of the dephasing time ($T_2^*$) due to incoherent noise. We observe an improved robustness against coherent errors in the estimation of dephasing time ($T_2^*$) compared to the standard (Ramsey) measurement.