The essential oils obtained from Origanum libanoticum Boiss., a plant endemic to Lebanon, were analyzed by GC/MS. Seventy compounds were identified, covering till 99.8% of the total oil composition. All samples were p-cymene and/or beta-caryophyllene chemotype, with variable percentage of other compounds such as alpha-pinene, myrcene, a-phellandrene, limonene, etc. Compared to traditional drying method, lyophilized samples provided the highest essential oil (EO) yields and yields were higher at flowering stage (Chouwen: 0.33% in 2013 and 0.32% in 2014; Qartaba: 0.27% in 2013 and 0.37% in 2014). According to independent components analysis (ICA), date and site of harvest, altitude and drying technique had no effect on the variation of O. libanoticum EO, chemical composition. An annual variation of EOs composition was observed since a particular variation in some major components concentration was revealed monthly and annually between 2013 and 2014.