Organic and inorganic soil amendments are used to increase crop yields and fertilizer efficiency, as well as to improve the physical and biological properties of soil, increase carbon sequestration, and restore contaminated and saline soils. The present study aimed to evaluate the effect of various zeolite composites mixed with either lignite or leonardite on the biomass production of spring wheat and rapeseed and their root morphology. A pot experiment involved the application of the following treatments: zeolite-carbon, zeolite-vermiculite composites, both mixed with lignite or leonardite, and a control treatment with no amendments. Inorganic composites were applied in a dose of 3% and 6%. The study also included an analysis of the root morphometric parameters and aboveground biomass of spring wheat and rapeseed. The lowest productivity was observed when both crops were not enriched with fertilizers or other amendments, 24.92 g per pot and 29.83 g per pot for spring wheat and rapeseed, respectively. The application of mineral fertilizers in combination with zeolite-carbon composite gave the highest aboveground biomass of spring wheat, 110.11 g per pot. Both zeolite-carbon and zeolite-vermiculite composites modified the morphological parameters of roots, with the control treatment showing the lowest root length and dry matter. Although mineral fertilization was found to have a positive impact root development in relation to untreated control, the treatment amended with zeolite-carbon composite and leonardite exhibited the highest root length and biomass of spring wheat. No other soil amendments improved the properties of rapeseed roots.