The aim of this study was to clinically and radiographically evaluate the effect of pulsed electromagnetic field (PEMF) therapy on soft tissue and bony healing after enucleation of cysts and implantation of bioactive glass. Twelve adults, of equal number males and females patients with more than 2x2x1 cm size intrabony cysts were included. Their age ranged from 15-45 years.The cyst was surgically enucleated according to the standard techniques and the resulting surgical defect was grafted using Bioactive glass. Postoperatively patients were divided randomly into two groups’ six patients each. Group I: subjected to pulsed electromagnetic field (PEMF) during the healing phase (2hours/day for 15 days postoperatively). Group II: The control group was not subjected to pulsed electromagnetic field (PEMF) during the healing phase. Clinically, both groups showed no evidence of graft rejection or infection but significant reduction of post operative pain and oedema in group I compared to the group II. Radiodensity measurement throughout the study showed a decrease in bone density after three months in both groups. Then the radiodensity was raised again at the 6th month radiographic assessment. Comparing the two groups, Independent sample t-test didn’t show any statistical significant difference in the bone density between the two groups throughout the study. From the results of the present study it was concluded that the use of pulsed electromagnetic field (PEMF) in maxillary cyst has a valuable effect in decreasing post-operative pain and edema but insignificantly affect the bone density.