Teaching materials characterization to support student research projects requires a systematic educational approach, because characterization involves a combination of analysis instruments. As analytical instruments are expensive, it is difficult to provide multiple sets simultaneously. An effective educational program allows students to select their own research materials to characterize and apply their personal strategies of instrumental analysis. These strategies are designed around the purposes of the analytical instruments, e.g., molecular structure analysis, crystal structure analysis, morphology assessment, surface analysis, elemental analysis, and thermal analysis. An open-ended laboratory complements this educational purpose. Here, we report on an open-ended laboratory program for fourth-year undergraduate and graduate students at the Materials Characterization Central Laboratory at Waseda University (Tokyo, Japan). The goals of our open-ended laboratory program are to enable students to (1) conduct instrumental analysis, (2) operate analytical instruments, and (3) interpret their data. A team led by a supervisor and laboratory staff offers students a flexible program. This flexibility can be applied to various research fields, such as macromolecular chemistry, inorganic chemistry, organic chemistry, physical chemistry, electrochemistry, physics, catalyst chemistry, biomaterials science, and chemical engineering. These diverse research fields demonstrate the feasibility of applying our open-ended laboratory program to student research projects.