To investigate the effects of water deficit stress and Bio and non-Bio fertilizers on Thymus Vulgaris, a split plot experiment was conducted based on randomized complete block design with three replications in 2017 in Asgarya agricultural field in Yazd. The treatments included water tension: W1=7 (control), W2=12 and W3=17 days irrigation intervals as the main factor and Bio and non - Bio fertilizers at five levels including B1= control (without fertilizer), B2= endo mycorrhiza (Glomus), B3= Azospirillum bacteria, B4= Pseudomonas bacteria and B5= chemical fertilizer (NPK) a sub – factors. Results showed that the highest flowering branches yield, a, b, and total chlorophylls and nitrogen and phosphorus elements were observed in 17 days of irrigation (W3). 12 days of irrigation treatment (W2) showed the highest potassium element rate. The highest a, b and chlorophylls and nitrogen were observed in Azospirillum treatment (B3). The highest total chlorophyll, phosphorus element, carotenoids and flavonoids were observed in Pseudomonas treatment (B4); the highest potassium element rate were obtained in mycorrhiza treatment (B2); the highest flowering branches yield were observed in NPK treatment (B5) and control (B1) treatment resulted in the highest anthocyanin