Quantum dots color conversion (QDCC) is considered as a facial and versatile way to achieve full-color organic light emitting diode (OLED) and micro-LED display due to the wide color gamut performance and easy integration. However, the aggregation of QDs and coffee-ring effects after solvent evaporation lowers the light conversion efficiency and emission uniformity in QDs microarrays, raising blue-light leakage or optical crosstalk. Here, we report the fabrication of perovskite quantum dots (PQDs) microarrays by combining the inkjet printing and in situ fabrication of PQDs during the photopolymerization of precursor ink. The resulting PQDs microarrays exhibit three-dimensional (3D) morphology with hemisphere shape as well as strong photoluminescence, which is desirable for QDCC applications. We demonstrate the dominant role of ultraviolet (UV) curable precursors and surface functionalized substrate in controlling the shape of microarrays, where significantly increased contact angle (100°) and large height to diameter ratio (0.42) can be achieved. We further demonstrate the potential use of the in situ direct print photopolymerization method for fabricating large-area multicolor patterned pixel microarrays with a wide color gamut and high resolution. The fabrication of 3D PQDs microarrays opens up new opportunities in a variety of applications including photonics integration, micro-LED, and near-field display.