Cathodoluminescence (CL) characterization combined with titanium concentration of quartz crystals in granite is a prevalent tool for elucidating the crystal growth of quartz in granitic magmas. The CL pattern yields to the internal structure, and the titanium concentration allows crystallization temperature determination based on TitaniQ geothermometry. Using two approaches, 1) observations of quartz crystals using thin sections and 2) observations based on multiple sections of separated quartz, we identified the overall characteristics of quartz crystals within a magma chamber and the 3D internal structure and growth characteristics of quartz grains. Thin section observations allow for the characterization of quartz containing zircon inclusions, indicating that zircon crystallization was followed by quartz crystallization; therefore, the onset of quartz crystallization occurred later than the onset of zircon crystallization in the cooling magma chamber. Such petrological restrictions permit allow for suitable geothermometer use and appropriate TiO2 activity estimation, and thus, accurate quartz crystallization temperature determination. Observations using multiple sections of separated quartz crystals provide 3D internal structures and true onset parts within the grains. Progressive variation in local activities of TiO2 in the concentration boundary layer at the growing quartz crystal interface in the magma chamber can be evaluated using a combination of the crystallization temperature and variations in titanium concentration within the grain, yielding a sequential crystallization model of oscillatory zoning quartz with local activities of TiO2 in the cooling magma chamber. The difference in CL characteristics and crystallization temperature among the lithofacies in granite contributes to clarifying the spatiotemporal magma chamber processes.