Boundary layer separation is a common challenge in fluid dynamics, where flow separates from a surface due to adverse pressure gradients. Transpiration, the injection or suction of fluid through a surface, is a technique used to mitigate this issue. This study investigates transpiration’s effects on boundary layer separation over a stretching wedge conveying ternary hybrid nanoparticles, which is crucial for optimizing various engineering systems. The study establishes a mathematical model incorporating transpiration, dual stretching, viscous dissipation, and nanoparticle volume fractions. The model is reduced to ordinary differential equations using similarity transformations and then solved numerically with MATLAB’s bvp4c package. Here, the convective heat transfer increases with suction and decreases with blowing due to changes in boundary layer thickness. This insight provides valuable information for engineers seeking to control temperature gradients in their systems. Moreover, the study highlights transpiration’s efficacy in mitigating boundary layer separation induced by adverse pressure gradients. Furthermore, flow enhancement with blowing depends on specific conditions, such as the value of the blowing parameter, highlighting its nuanced influence.