We develop a consistent mathematical framework for studying two flavor neutrino oscillations in presence of non-Hermitian dynamics. We consider two approaches : (a) bi-orthonormal inner product defined by a positive-definite metric operator and (b) the density matrix prescription by Brody and Graefe [Phys. Rev. Lett. 109, 230405 (2012)]. For the -symmetric case, we show that the metric approach does not work well (probabilities are not conserved) both in -unbroken as well as -broken regime. Hence, we adopt the density matrix prescription by Brody and Graefe which is a positive semi-definite map. In the density matrix prescription, we note that probability in the steady state limit is not necessarily thereby indicating non-Markovian behavior.

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