Haemophilus influenzae is a Gram- negative coccobacillus which colonizes the upper respiratory tract and is responsible for many respiratory tract infections including otitis media, epiglottitis, meningitis, sinusitis, and pneumonia, particularly in children. H. influenzae has many virulence factors therefore is considered resistant to many drugs.The aim of this study was investigation of antibacterial activity of Citrus limon, C. japonica and black- dried lemon extracts against H. influenzae isolates. H. influenzae was isolated from different specimens including sputum, tonsils swabs, nasal swabs, otitis media swabs, and nasopharyngeal swabs. Specimens were grown on blood agar and chocolate agar. The specimen was identified using standard techniques, including biochemical tests, microscopic diagnosis, culture characteristics and PCR techniques.The effect of different concentrations of citrus was examined against H. influenzae strains. The results revealed the effectiveness and safety extracts of citrus against H. influenzae isolates that can be used to support the progress of alternative antimicrobial drugs. Lemon juice was most effective than black- dried lemon and C. japonica with an inhibition zone of 27 mm.