High-speed railway (HSR) lines commonly operate over hundreds of kilometers, crossing several other large-scale infrastructures, such as highways, tunnels, bridges, and pipelines. This fact makes adjacent infrastructure more vulnerable to high-speed train (HST)-induced vibrations; thus, their potential distress should be carefully examined. The current study aims to assess the level of traffic-induced vibrations on the surface of buried pipelines vertically crossing under an HSR line. Firstly, the necessity to reduce high vibration levels is highlighted, utilizing a three-dimensional (3D) finite element model in conjunction with the moving load approach. Subsequently, an efficient mitigation measure is proposed to minimize these vibrations. For this purpose, a low-weight, high-performance geosynthetic fill material, i.e., expanded polystyrene (EPS) geofoam blocks, has been implemented between the HSR line and the buried pipeline to minimize the impact of vibrations. In this manner, HST-induced vibrations are reflected on EPS blocks, preventing them from reaching the pipeline surface. Based on this detailed parametric study, useful conclusions are drawn regarding the mechanical properties and geometry of the EPS protection layer.