A field experiment was conducted during the two growing seasons (2019-2020), At Agricultural Experimental Station of the Desert Research Center at Khamisa Village (29.21º N and 25.40º E), Siwa Oasis, Matrouh Governorate, Egypt, to study the effect of biofertilizers (Azotobacter chroococcum, Bacillus megatherium and Pseudomans fluorescence ) and foliar applications with copper, manganese, and iron at two concentrations of 0.2 and 0.4% (Cu, Mn, and Fe). The best results recorded with A. chroococcum combined with 0.4%iron for most parameters. The outcomes were as follows: Both biofertilizer inoculation and micronutrients foliar application gave a synergistic effect and enhanced the uptake of minerals and their metabolism in plants. The application significantly impacted the development, yield, and microbial community in the rhizosphere of inoculated plants. Compared to the control, the interaction treatments between biofertilizer inoculation and micronutrient foliar application had the most positive effects on onion plant growth indices, yield, and microbial activity in the rhizosphere.A.chroococcum increased plant height, leaves number, plant fresh and dry weight specifically with 4.0% iron, bulb diameter with Mn and Fe, yield ,total microbial count with Fe at 2.0 and 4.0% compared with B. megaterium, and Ps.fluorescence. Comparing with Ps.fluorescence and A.chroococcum, B.megaterium recorded the highest, bulb weight, bulb diameter with copper (Cu), total soluble solids (TSS), total microbial count with Cu and Mn, Bacillus count and phosphatase activity.