A method and system for improving alignment precision of MEMS parts during manufacturing are disclosed. According to the invention at least one of the MEMS parts comprises a cavity wherein a sphere or bearing is centered and preferably temporary blocked with a temperature dissipative material. When MEMS parts are in contact of the sphere or bearing, the temperature dissipative material is evaporated, offering a very low friction against two facing MEMS parts moving in different directions, enabling a very precise positioning. In a first embodiment, each MEMS part comprises pads that are used in conjunction with soldering alloy for self-aligning the parts. In a second embodiment, each part comprises at least one cavity, the upper cavity having a conic shape and the lower cavity having a flat floor, the alignment being obtain when the stable state is reached i.e., when the sphere is centered on the cone center of the upper cavity.