Citrus fruits and their essential oils play a vital role in every aspect of human life. Essential oils derived from citrus peel are rich in polyphenols and act as secondary metabolites to treat various diseases and they can be used as insecticide or pesticide. These citrus oil derivatives are much popular in flavour and fragrance industry and FMCG sector. In present research work five variants of citrus fruits; C. aurantium (Narinja), C. hystrix (Gondhoajlebu), C. limon (Lemon), C. limetta (Mosambi) and Citrus reticulata Blanco (Nagur Orange) were selected from different regions of India; Telangana, Andhra Pradesh, Kolkata and Maharashtra. The collected samples were further studied using SPME-GCMS analysis to identify the specific molecules which are not in common. Most identified moleculesthrough GCMS analysis are Limonene, Alpha pinene, Myrcene, Delta-carene, Sabinene etc. Each molecule has a significant aroma and used in many Flavour & Fragrance industry. The chemical molecules identified in Narinja (C. aurantium) citrus fruit are specific and not identified in any of the selected fruits they areBicyclogermacrene, Isopiperitenone, Alpha eudesmol, Beta eudesmol. Antimicrobial activity of five essential oilsreports Narinja oil has potent activity on E. coli, Staphylococcus aureus and Bacillus followed by lemon oil and orange oil on E. coli and Bacillus, Mosambion Bacillus and Gondhorajlebu on E. coli. This data reveals that there aresome specific molecules in C. aurantiumto be considered for further research for their medicinal aspects, as mosquito repellent or in F&F industry.