This study theoretically investigates the modeling of spherical catalytic self-phoretic magnetic Janus microrobot (MJR) evolving in uniform viscous flow. A 2-D state-space representation of the MJR is developed, exhibiting a state-dependent-coefficient (SDC) form. To evaluate the consistency of the modeling formalism, a dual Kalman filter (DKF) methodology is employed with respect to experimental results when unknown parameters or uncontrollable inputs are considered. In fact, the self-phoretic thrust mechanism and the magnetodynamics of the MJR are not well-known. SDC-DKF is implemented, and we find that there is good agreement between the dynamics computed from our theoretical predictions and the experimental observations in a wide range of model parameter variations.