Disease outbreaks caused by opportunistic Vibrio species represent a major constraint in penaeid shrimp larviculture. Prophylactic antibiotic use leads to drug resistance and environmental concerns, making microbial management an attractive alternative. Following a rigorous screening of over 70 Bacillus strains for Vibrio antagonism, salinity tolerance, non-pathogenicity, and waste degradation, a commercial multi-strain probiotic mixture was formulated and evaluated in commercial and pilot-scale hatcheries in Thailand (Penaeus monodon) and Brazil (Litopenaeus vannamei). In Thai trials, daily application of germinated Bacillus spores (1–5 x 10^4 CFU/mL) significantly reduced Vibrio counts in rearing water and resulted in harvest biomass (58.3 ± 28.7 g/tank) comparable to antibiotic prophylaxis (48.3 ± 22.3 g/tank) and significantly higher than untreated controls (18.6 ± 15.6 g/tank). In Brazilian commercial trials (20 MT tanks), daily probiotic additions yielded higher larval survival across stages from nauplii to PL10 compared to prophylactic antibiotic and formaldehyde treatments. These field data demonstrate that properly managed Bacillus probiotics provide a cost-effective, sustainable alternative to antibiotics in shrimp hatcheries.