Objective To evaluate the outcome of endodontic microsurgery in 54 cases with persistent apical periodontitis. Methods All surgical procedures were performed under a dental operating microscope after root canal treatment. Surgical procedures included periapical curettage, root-end resection, retropreparation with ultrasonic microtips, and root -end filling with mineral trioxide aggregate(MTA). Healing was monitored clinically and radiographically. Results One year later, 31(57.41%) cases were cured, 19(35.19%) cases were improved, 4(7.41%) cases were failure. There were no statistical difference between sex, age, tooth location, size of the lesion and pathological features(P>0.05). Conclusion The outcome of the present study indicates that endodontic microsurgery may result in a predictable treatment outcome in teeth with persistent periradicular lesions.