Objective To evaluate the guiding role of magnetic navigation system (MNS) in the radiofrequency catheter ablation of atrioventricular nodal reentrant tachycardia (AVNRT). Methods Patients with AVNRT diagnosed by electrophysiological examination were randomized into two groups. Ten patients were enrolled to each group respectively. The patients’ age,gender,tachycardia history and basic cardiovascular diseases were matched between two groups. Conventional 4mm tip temperature controlled ablation catheter was used in routine technique procedure (RTP) group and magnetic navigated temperature controlled ablation catheter was used in MNS group. Following parameters were obtained and compared between the two groups: ablation time,patient fluoroscopy time,operator fluoroscopy time,delivery times,ablation energy,success rate,complication rate and operation cost. Results The procedures were successful in all patients,and no complication was reported. No tachycardia recurred during (7.1±1.4)months follow-up. In MNS group,ablation time,patient and operator fluoroscopy time,delivery times and ablation energy were lower than those in RTP group,but operation cost was higher than that in MNS group. Conclusion MNS guided radiofrequecy catheter ablation of AVNRT has the advantages of shorter ablation and fluoroscopy time,lower delivery times and ablation energy compared to the current routine ablation technique.