In the current scenario, the contamination of aquatic bodies is global issue due to the presence of wide range of toxic contaminants such as; pathogenic microbes, pharmaceuticals, organic contaminants, pesticides and heavy metals. If not treated properly, these contaminants impose a deleterious impact on human health and the environment. Nano-biochar synthesis from waste agricultural biomass having activated nanoparticles may be employed to entrap and adsorb the contaminants such as heavy metals and remove the pathogenic microbes. Therefore, in this study, the synthesis of nano-char from pineapple peels and subsequent integration with charcoal and chicken feather as layer-bylayer deposition system at different ratios. The contaminated water sample filtered was treated through the fabricated filter and treated water collected at different intervals to determine their purification efficiency such as TDS, Conductivity, pH, bacterial count and heavy metal concentration. Results revealed that the nano-composite biofilter consisting of agro-waste, charcoal and chicken feather (4%) possessed high adsorption capacity of heavy metals, prolonged anti-microbial activity. Additionally, the nano-composite biofilter was capable of significantly reducing the TDS, pH and conductivity upto 27.3mg/l, 7.11 and 53μS/m respectively in the treated water. Thus, the nanocomposite bio-filter may be employed as cost-effective materials for the treatment of waste water at small scale to large scale water treatment plants with simultaneous recycling of the agro-waste to reduce the environmental pollution.