The present study assesses the effect of drought stress on the Moringa biotype under magnetized water treatment (MWT). The Moringa biotype seedlings were subjected to drought stress with varying field capacities (FC) viz., control (100% FC), moderate drought stress (MS,50% FC), and severe drought stress (SS, 20% FC). Magnetized water (MW) significantly increased plant height, leaflet number, internode distances, leaf area, dry weight of the leaf, shoot, root of the seedlings and markedly improved the assimilation, transpiration, stomatal conductance, water use efficiency and vapor pressure deficit under drought stress conditions. The maximum quantum efficiency of PSII (Fv/Fm) and maximum chlorophyll fluorescence (Fm) were increased and minimum chlorophyll fluorescence (F₀) in the darkadapted state was decreased under drought stress with MWT. Photosynthetic pigments (Chl a, Chl b, carotenoids) significantly decreased under drought stress, but MW significantly increased them. The MW application in Moringa biotype resulted in a decrease in total phenolic content (TPC) by 19% and 26% under MS and SS conditions, respectively. Malondialdehyde(MDA), hydrogen peroxide(H₂O₂) and accumulation of proline in leaf were decreased with the prolongation of drought with MW. MW could be used for alleviating the drought stress in Moringa biotype seedlings and improve drought tolerance by modulating the physiological activities.