Abstract: One of the fundamental parameters entering the neutrino oscillation framework is the leptonic CP phase delta(13), and its measurement is an important goal of the planned long baseline experiments. It should be noted that ordinary matter effects complicate the determination of this parameter, and there are studies in the literature that deal with separation of intrinsic vs extrinsic CP violation. It is important to investigate the consequences of new physics effects that can not only hamper the measurement of delta(13) but also impact the consequences of discrete symmetries such as CP, T, and unitarity in different oscillation channels. In the present work, we explore these discrete symmetries and implications on unitarity in the presence of two new physics scenarios (nonstandard interaction in propagation and the presence of sterile neutrinos) that serve as good examples of going beyond the standard scenario in different directions. We uncover the impact of new physics scenarios on disentangling intrinsic and extrinsic CP violation.