The advancement of Industry 4.0 has significantly propelled the widespread application of automated guided vehicle (AGV) systems within smart factories. As the structural diversity and complexity of smart factories escalate, the conventional two-dimensional plan-based navigation systems with fixed routes have become inadequate. Addressing this challenge, we devised a novel mobile robot navigation system encompassing foundational control, map construction positioning, and autonomous navigation functionalities. Initially, employing point cloud matching algorithms facilitated the construction of a three-dimensional point cloud map within indoor environments, subsequently converted into a navigational two-dimensional grid map. Simultaneously, the utilization of a multi-threaded normal distribution transform (NDT) algorithm enabled precise robot localization in three-dimensional settings. Leveraging grid maps and the robot’s inherent localization data, the A* algorithm was utilized for global path planning. Moreover, building upon the global path, the timed elastic band (TEB) algorithm was employed to establish a kinematic model, crucial for local obstacle avoidance planning. This research substantiated its findings through simulated experiments and real vehicle deployments: Mobile robots scanned environmental data via laser radar and constructing point clouds and grid maps. This facilitated centimeter-level localization and successful circumvention of static obstacles, while simultaneously charting optimal paths to bypass dynamic hindrances. The devised navigation system demonstrated commendable autonomous navigation capabilities. Experimental evidence showcased satisfactory accuracy in practical applications, with positioning errors of 3.6 cm along the x-axis, 3.3 cm along the y-axis, and 4.3° in orientation. This innovation stands to substantially alleviate the low navigation precision and sluggishness encountered by AGV vehicles within intricate smart factory environments, promising a favorable prospect for practical applications.