<p>Application of bacterial consortia exhibiting plant growth promotion abilities has emerged as an effective tool for enhancing the productivity of crops. However, tracking their persistence has been difficult in the soil microenvironment. In our previous study, spontaneous mutants of three plant growth-promoting bacteria, viz. <i>Azotobacter chroococcum</i>, <i>Priestia megaterium</i>, and <i>Pseudomonas</i> sp. SK3, constituting a bacterial consortium, were generated. In this study, the wild-type strains and their respective mutants were amended to <i>Cajanus cajan</i> as bioformulations in different combinations (mono-, dual-, or triple inoculants), and their efficacy was assessed on plant growth attributes and grain yield. Enumeration of these strains from rhizospheric soil led to their successful tracking at different developmental stages of <i>C. cajan</i>. The impact of treatments was also examined on the abundance of total bacterial and fungal members, dominant bacterial phyla, and phosphorus cycle genes in rhizosphere, by qPCR. The status of soil nutrients was determined in terms of the available NPK and total organic carbon content in the soil. The results revealed that the triple inoculant, followed by dual- and monoinoculan, enhanced plant growth attributes and the abundance of microbial communities in the rhizosphere. Culture-dependent enumeration revealed the persistence of strains in different treatments at both vegetative and flowering stages; however, the abundance declined at the harvest stage. Application of these bacterial strains also led to betterment in the nutrient status of soil. Overall, using spontaneous antibiotic-resistant bacterial mutants, this study demonstrated simultaneous tracking of the three members of a plant growth-promoting bacterial consortium in the rhizosphere of <i>C. cajan</i>, and successfully correlated its application with enhanced plant and soil health.</p>