<p>Small modular reactors (SMRs) require effective heat dissipation and fuel management in compact environments. Entropy generation analysis and optimizing mass transfer optimization play a crucial role in enhancing their efficiency and operational stability. The current model examines the effects of endothermic/exothermic reactions and low oscillating magnetic field on the rough rotating disk with a partial slip. By applying similarity transformation, the complex conservation laws governing the fluid flow are simplified into a set of nonlinear ordinary differential equations. Employing the Runge-Kutta-4^th5^th order, the study ensures accurate and computationally efficient numerical solutions for the governing equations. In addition to examining velocity, thermal, and solutal profiles, the study evaluates entropy generation and calculates the Bejan number to augment the heat transfer rate. In a novel approach response surface methodology coupled with analysis of variance is utilized to optimize influential parameters affecting the rate of mass transfer. Higher values of the radial slip coefficient and porosity parameter impede fluid motion. Furthermore, endothermic scenarios increase the thermal profile, while exothermic ones decrease it. The Brinkman number was found to have a more significant effect on increasing entropy. The higher F-value (432.71) and p-values below 0.05 confirm the regression model's statistical significance.</p>