Introduction:Linum usitatissimum (flax seed) has been cultivated for domestic use since prehistoric times. Its use as a dietary supplement becomes more popular nowadays. Nigella sativa seeds and oils have been widely used for centuries in the treatment of various ailments throughout the world. It is an important drug in the Indian traditional system of medicine like Unani and Ayurveda. Methods: This is a laboratory experimental in-vitro study using select-ed oral pathogens (Streptococcus mutans, Klebsiella pneumoniae and Pseudomonas aeruginosa) cultured in nutrient agar. The pathogens were then inoculated in nutrient based broth and incubation for 24hours. Linum usitatissimum and Nigella sativa extract efficacy was tested by measurement of the zone of inhibition. The result of the extracts antimicrobial activities were compared with positive control (penicillin) and negative control(Dimethyl sulfoxide DMSO). The statistical analysis was done by using SPSS18. Results: The antibacterial effect of Linum usitatissimum and Nigella sativa extract is comparable to the effect of penicillin and this study shows that flax seed extract shows more potent antibacterial effect than Nigella sativa on Streptococcus mutans and Pseudomonas aeruginosa while both extracts didn’t show an effect on Klebsiella pneumoniae. Conclusion: The results of the present study scien-tifically validate the inhibitory capacity of Linum usitatissimum or Nigella sativa as antibiotic against selective oral pathogens this will contribute towards the development of new treatment options based on natural base products.