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The ecosystem is considerably affected due to the extensive use of chemical pesticides and fertilizers. As an alternative strategy, this study aimed to assess the biocontrol potential of the bioagents arbuscular mycorrhizal fungi and plant growth-promoting Trichoderma harzianum MZ025966 against tomato root-knot nematodes (Meloidogyne javanica). T. harzianum showed a great potentiality to produce indole acetic acid (IAA) (12.11 ± 2.12 μg/mL) and exhibited a noticeable activity of ammonification. Furthermore, T. harzianum revealed protease and lipase enzymatic activity of 28.36 ± 2.82 U/mL and 12.30 ± 0.31 U/mL, respectively, which may illustrate the control mechanism of nematode eggs and juveniles. As in mycorrhizal and/or T. harzianum inoculated tomato plants, the penetration rates of nematodes, as well as the number of juveniles, females, egg mass, and galls were significantly reduced. The lowest number of juveniles was observed in the case of either single mycorrhizal inoculation (45%) or in combination with T. harzianum (55%). The enzymatic activity of glutathione peroxidase and catalase was enhanced in tomato plants inoculated with the bioagents to overcome the negative impact of nematode parasitism. Our results proved that the application of biocontrol agents not only reduced the nematode population and penetration rate but also improved the plant growth, increased the nutritional elemental content and stimulated the plant’s systematic resistance.