Objective: Ventricular or supra-ventricular arrhythmias associated with congenital heart disease should be dealt with upon the correction of underlying cardiac anomalies. We analyzed our experience of arrhythmia surgery in patients with congenital heart disease. Methods: A retrospective review of 43 consecutive patients with congenital heart disease, who underwent arrhythmia surgery between June 1998 and Jun 2006, was performed. Results: Median age at operation was 52 years (4 - 75 years). Most frequent cardiac anomaly was atrial septal defect (23), followed by Ebstein���s anomaly (5) and functionally single ventricle with atrio-pulmonary connection type Fontan operation (3). Types of arrhythmias were atrial flutter-fibrillation in 37, intermittent non-sustainable ventricular tachycardia in 2 and others in 4. Arrhythmia surgery comprised bi-atrial maze operation in 18 (modified cox maze III procedure in 5, right side maze plus pulmonary vein cryo-isolation in 13), right side maze operation in 18, cavo-tricuspid isthmus cryoablation for benign atrial flutter in 4, right ventricular endocardial cryoablation in 2 and extranodal cryoablation for atrioventricular node re-entry tachycardia in 1. Median follow-up was 23.8 months (1-95.2 months). There was no early mortality, and one non-cardiac late death. Overall rates of restored sinus rhythm before discharge and 3-6 months after operation were 83.7% and 87.8%, respectively ( bi-atrial maze group: 72.2% and 77.8%, right-side maze group: 83.3%, 88.9%). Two patients received permanent pacemaker implantation for sick sinus syndrome after biatrial or right side maze operations. Conclusion: Surgical treatment of arrhythmias associated with congenital heart disease can be performed safely with excellent intermediate-term outcome.