Near-infrared (NIR)-emitting persistent luminescence (PersL) nanoparticles have attracted great attention as a novel optical probe for bioimaging and biosensing applications. These nanoparticles emit long-lasting luminescence after the removal of the excitation source, which effectively eliminates the interference from tissue autofluorescence. Cr-doped zinc gallate (ZnGa2O4:Cr3+, CZGO) is a representative NIR-emitting PersL material. On the other hand, amorphous calcium phosphate (ACP) is a widely used drug carrier due to its high biocompatibility. In this work, we present a design of an ACP-based drug carrier with PersL properties, by forming a CZGO-ACP composite. The PersL properties of CZGO were preserved by composite formation, while it is found that the Zn2+ could migrate from CZGO to ACP during composite formation, leading to different luminescence mechanisms between pure CZGO and the CZGO-ACP composite. The electronic structure of the composite was analyzed by synchrotron X-ray absorption spectroscopy, and a structure-luminescence correlation was proposed.