Abstract The microwave-assisted rock fragmentation has been proven to be a promising approach in reducing cutting tools wear and improving efficiency in rock crushing and excavation. Thus, understanding the influence of damage induced by microwave irradiation on rock fragmentation is necessary. In this context, cylindrical Fangshan granite (FG) specimens were exposed to microwave irradiation at a power of 6 kW for different durations up to 4.5 min. The damages of the specimens induced by irradiation were quantified by using both X-ray micro-CT scanning and ultrasonic wave measurement. The CT value and P-wave velocity decreased with increase of irradiation duration. The irradiated specimens were then tested using a split Hopkinson pressure bar (SHPB) system to simulate rock fragmentation. A momentum-trap technique was utilized to ensure single-pulse loading on the specimen in SHPB tests, enabling valid fragment size distribution (FSD) analysis. The dependence of dynamic uniaxial compressive strength (UCS) on the irradiation duration and loading rate was revealed. The dynamic UCS increased with increase of loading rate while decreased with increase of irradiation duration. Using the sieve analysis, three fragmentation types were proposed based on FSD, which were dictated by both loading rate and irradiation duration. In addition, an average fragment size was proposed to quantify FSD. The results showed that the average fragment size decreased with increase of loading rate. A loading rate range was identified, where a dramatic reduction of the average fragment size occurred. The dependence of fragmentation on the irradiation duration and loading rate was also discussed.