Abstract The feasibility of two organic materials (pig slurry and compost) in combination with hydrated lime for the remediation of a highly acidic trace elements (TEs) contaminated mine soil was assessed in a mesocosm experiment. The effects of the amendments on soil biochemical and ecotoxicological properties were evaluated and related with the main physicochemical characteristics of soil and soil solution. The original soil showed impaired basic ecological functions due to the high availability of TEs, its acidic pH and high salinity. The three amendments slightly reduced the direct and indirect soil toxicity to plants, invertebrates and microorganisms as a consequence of the TEs’ mobility decrease in topsoil, reducing therefore the soil associated risks. The organic amendments, especially compost, thanks to the supply of essential nutrients, were able to improve soil health, as they stimulated plant growth and significantly increased enzyme activities related with the key nutrients in soil. Therefore, the use of compost or pig slurry, in combination with hydrated lime, decreased soil ecotoxicity and seems to be a suitable management strategy for the remediation of highly acidic TEs contaminated soils.