Slaughterhouse wastewater (SHWW) is classified as industrial waste, which is exceptionally harmful to the environment due to its high content of biological oxygen demand (BOD), chemical oxygen demand (COD), and suspended solids, which result from high organic and nutrient loading. This study used a pilot system to treat SHWW from the Kafrelsheikh Governorate slaughterhouse, which includes a three-step process. It started with sedimentation, then coagulation and flocculation using different concentrations of each: natural zeolites (Z) and Psidium guajava-leaf powder (GLP) as green and environmentally friendly agents, and alum (A) as an inorganic coagulant. The final step was filtration with physically treated rice straw (RS). Each step was judged separately by measuring the removal percentages of each analyzed pollutant, and finally, the overall process was evaluated using the same method. A jar test was used to determine the best concentration of each coagulant used. The measured pollutants were physico-chemical, such as COD, BOD, TSS, TKN, and turbidity. The bacteriological examination included TBC, TCC, and FC. The jar-test results determined that Z 1200 mg/L SHWW, GLP 1 g/L, and A 6 g/L were the best concentrations for each coagulant used. In the coagulation step, GLP 1 g/L gave the highest removal percentage of TSS, TKN, EC, and turbidity, while Z 1200 mg/L gave the highest removal percentage of COD, TDS, TBC, and TCC. From these results, it was concluded that a natural coagulant performs better than a chemical one. Finally, judging the overall pilot test system after applying the filtration with physically treated RS, we found that the best removal efficiencies were obtained from Z 1200 mg/L combined with RS. This combination resulted in 90.58, 83.47, 88.75, 54.89, 21.39, 34.49, 84.16, 99.98, and 99.93 removal percentages for BOD, COD, TSS, TKN, EC, turbidity, TBC, and TCC, respectively.