Due to the stratified nature of the manufacturing process, material extrusion (ME) parts have lower mechanical properties than those fabricated by traditional technology. This is one of the most significant defects hindering the development and application of this rapid prototyping technique. In this paper, vibration was applied to the ME process by using piezoelectric ceramics for the first time to improve the mechanical properties of the built parts. The vibrating ME equipment was established, and the specimens processed in different build directions were individually fabricated without applied vibration and with different applied vibrations. To quantify the effect of applied vibration on their mechanical properties and to summarize the influencing rule, a series of experimental tests were then performed on these specimens. A comparison between the testing results shows that the tensile strength and plasticity of the specimens, especially those processed in the Z direction, can be obviously improved by applied vibration. The orthogonal anisotropy is decreased obviously. The improvement becomes greater with increasing vibration frequency or amplitude. From the microscopic point of view, it can be seen that applied vibration can reduce the part’s defects of porosity and inclusion as well as separation between layers and, thereby, improve the bonding strength.