Background: A complete root canal filling is substantial for long-term success of endodontic treatment. The present study was conducted to compare sealing ability of BC sealer and AH Plus using SEM and micro-CT. Materials & Methods: 50 teeth were instrumented to a size of 40/06 using a crown-down technique. Irrigation was with 2 mL 2.5% NaOCl was employed. Canals were then dried with paper points and samples were randomly divided into two groups. Group I samples were filled with AH Plus Root Canal Sealer and group II samples were filled with EndoSequence BC Sealer. All specimens were scanned using micro-CT and then three from each group were randomly selected for SEM analysis. Results: The mean total ROI volume (mm3), object (Dentine) volume (mm3), volume of closed pores (mm3), surface of closed pores (mm2), volume of open pores (mm3) and open porosity (%) at apical third was 7.0 and 7.6, 1.50 and 1.35, 0.155 and 0.115, 0.230 and 0.175, 4.00 and 70 and 73 in group I and II respectively. At middle third, in group I was 7.5, 1.50, 0.370, 0.310, 5.41 and 71.5 and in group II was 7.4, 1.40, 0.400, 0.475, 7.0 and 82.1 respectively. At coronal third, in group I was 7.5, 1.40, 0.65, 0.620, 6.75 and 77 and in group II was 7.6, 1.35, 0.90, 0.810, 6.88 and 80 in group II respectively. A significant difference was observed in apical third (P< 0.05). Conclusion: Authors found that both the sealant found to be equally effective. Key words: Root canal, Sealant, Endodontic