<p>This work examines the effects of the Darcy number on the magneto-hydrodynamic (MHD) flow properties of Sisko nanofluids driven by cilia-induced motion in a porous medium. The flow is investigated in the presence of a transverse magnetic field, taking into account the microscale pumping mechanism produced by ciliary motion as well as the nonlinear rheological behavior of Sisko fluids. The complicated coupled system of momentum and energy equations is governed by a mathematical model that takes into consideration the resistance of porous media, thermal conductivity of nanofluids, and viscous dissipation. The homotopy perturbation method (HPM) is used to get approximate analytical solutions because it works well for nonlinear systems with strong physical interactions. The findings show that while the presence of cilia improves fluid transport in particular flow regimes, the Darcy number dramatically changes the velocity and temperature distributions. Additionally, rheological fluid properties and magnetic field strength are important factors in regulating heat transmission and flow resistance. These discoveries shed more light on the development and management of non-Newtonian nanofluid-based microfluidic systems and biomedical devices. Graphs are used to discuss the temperature, concentration force, and velocity profiles concerning various parameters, along with the variation of the streamline wave frame for key parameters. This analysis provides insights into the behavior of physiological and geographically significant fluid flows.</p>