The invention discloses a vehicle navigation system with the high safety and a guiding method thereof. The vehicle navigation system comprises a real-time data collection unit, a data processing unit, a navigation map storage unit and an output reminding unit; the data processing unit receives real-time data collected by the real-time data collection unit, the real-time data is matched with map data provided by the navigation map storage unit after being processed, and then guiding information is output by the output reminding unit. Accordingly, the driving safety is promoted through sensor recognition results, sensors comprise a high-precision map, a binocular camera and a radar, the characteristics of all the sensors are combined, targeted screening and filtering are conducted, and after the results are integrated, the safety guiding information is output.