The work aims to solve the intelligent packaging RFID tags conflict in the logistics system at current stage. On the basis of studying the performance and shortcomings of existing anti-collision algorithms, a grouped dynamic frame slotted ALOHA-Hybrid Query Tree (GDFSA-HQT) algorithm was designed for a large number of tags scenarios. The GDFSA-HQT algorithm estimated the number of unrecognized tags after each round of tags identification. If the number of unrecognized tags was less than or equal to 354, the dynamic frame slotted ALOHA (DFSA) algorithm was used to identify the tags firstly, and then the hybrid tree query algorithm (HQT) was used for tags identification. If the number of unrecognized tags was greater than 354, the tags should be first grouped, and then DFSA and HQT would be used for tags identification. The simulation experiment showed that GDFSA-HQT algorithm throughput rate could be maintained at around 0.82. The GDFSA-HQT algorithm solves the tag collision problem and has a good application prospect in a large number of intelligent packaging logistics systems.