The article describes new strategies for the remediation of soils contaminated with organic and inorganic pollutants. The aim of this study is to investigate the synergistic effects of combining plant-microorganism-functional materials for a more effective reduction of soil contamination with toxic chemicals. The innovative triad involves functional materials as a habitat for microorganisms, which helps to control the release of pollutants into the soil solution from the adsorbed form. This, in turn, reduces the toxic effect on microorganisms and plants. Microorganisms play a complex role, consisting of partial biodegradation of pollutants, stimulation of plant growth, and support for nutrient supply. Plants synthesize root exudates that facilitate microorganisms in biodegrading organic pollutants and stimulate their growth. The plant takes up pollutants through the root system, which can be further supported by endophytic microorganisms. The cooperation of the three players produces a synergistic effect that enhances the effectiveness of rhizodegradation supported by functional materials, which is more effective than using microorganisms, phytoremediation, or functional materials alone. The combination of physicochemical methods (functional materials) and microbiological methods (bacteria and fungi, rhizosphere, symbiotic and non-symbiotic) supported by plants (hyperaccumulators) is a promising approach for reducing chemicals from soil. Key examples of the synergistic effects of combining plant-microorganism-functional materials have been provided in this article.