Supported nanocatalysts exhibit different performance in batch and fixed bed reactors for a wide range of liquid phase catalytic reactions due to differences in metal leaching. To investigate this leaching process and its influence on the catalytic performance, a quantitative 3D characterization of the particle size and the particle distribution is important to follow the structural evolution of the active metal catalysts supported on porous materials during the reaction. In this work, electron tomography has been applied to uncover leaching and redeposition of a Pd@CMK3 catalyst during formic acid decomposition in batch and fixed bed reactors. The 3D distribution of Pd NPs on the mesoporous carbon CMK3 has been determined by a quantitative tomographic analysis and the determined structural changes are correlated with the observed differences in activity and stability of formic acid decomposition using batch and fixed bed reactors.