Boundary-layer ingested engines have the potential to offer significantly reduced fuel burn, but the fan stage must be designed to run efficiently with a distorted inflow. It must also be able to withstand unsteady aerodynamic loads resulting from a complex nonuniform flowfield. This paper applies different numerical methods for an improved understanding of the aerodynamic interaction between a transonic fan and inlet distortion. A single-stage transonic tail cone thruster fan was designed using both in-house and commercial tools operating in an inlet distortion flowfield. This paper demonstrates that the relevant metrics required to compute the aerodynamic performance of a fan stage in distorted conditions can be reasonably modeled with a few harmonics using the nonlinear harmonic method in a fraction of time in comparison to a full annulus time marching solution. The nonlinear harmonic method also reduces the computational domain, and hence reduces the solution runtime by an order of magnitude. However, it fails to accurately resolve the wake and potential field transfer across the blade rows due to a limited number of harmonics being applied. A detailed aerodynamic description of the unsteady inflow distortion, the interacting blade-row mechanisms, the flow redistribution upstream of the rotor, the distortion transfer across the different blade rows, and the corresponding aerodynamic losses can be analyzed accurately using only a full annulus time-marching method.