Objective: Comparison of the effectiveness of Bio pure MTAD (mixture of Doxycycline, citric acid and a detergent) versus vanillin(V) as an endodontic aqueous solutions for tested canals infected with E. faecalis and S. Mutans. Materials and methods : Fourty human extracted lower bicusped teeth (single-rooted) unit at the cementoenamel junction (CEJ) were decoronated. Thereafter, the teeth were prepared with Protper NiTi rotary files till (F3 [30/.06). Then samples are often divided into “2” main groups (18/each), infected by bacteria and incubated in brain heart infusion (BHI) for forty-eight hours at “37°C”. Then the teeth were sub-divided into three groups(N=6) according to the irrigation protocol (MTAD, V, and Distilled water”DW”, which was the control group ”Gp.”).-ve control(N=4). Dentin chips were removed from the canals by sterile low-speed handpiece spherical bur, transfered to BHI, then cultured to count the growing colonies which were recorded as colony forming unit (CFU).Results : Siginficant differences were found in the bactericidal efficacy of (Bio pure MTAD, V and DW) irrigations. Conclusion:Bio pure MTAD had the maximum antibacterial efficacy on E.faecalis and S. mutans as compared to vanillin and DW. Significance and impact of the study: Understanding the mode of action of natural antimicrobials(V) on endodontic therapy may facilitate their application as natural endodontic solutions, particularly for their potential use in endodontic irrigation protocol employing multiple hurdles.Additionally compared these natural compound with artificial one like MTAD and so on.