Improving the activity and stability of electrocatalysts for the hydrogen evolution reaction (HER) plays an essential role in the practical application of electrochemical water splitting under alkaline conditions. Here, trace Pd-doped Ru nanoparticles have been achieved using the pulsed laser ablation in liquid technology, which exhibit efficient HER catalytic performance. It is evidenced that the Pd doping amount is maintained at a trace level and increases nonlinearly with the concentration of the Pd precursor. Molecular dynamics simulations demonstrate that the trace doping of Pd is due to the slow thermal decomposition rate of the Pd precursor. This work improves the mechanistic explanation of the metal doping induced by liquid-phase laser ablation, which may promote the fabrication and application of advanced laser-based nanostructures.