Wastewater disinfection is one of the most critical issues in protecting human health against exposure to waterborne pathogenies. Chlorine is among the most commonly used disinfectants in many wastewaters’ treatment plants. Nevertheless, disquiets regarding chlorine’s disinfection by-products (DBPs) have grown recently. One of the most effective ways to reduce DBPs generation is to reduce chlorine dosage by increasing disinfectant efficiency. Using magnetic field (MF) in wastewater treatment is one of the promising research topics with significant progression. This study aimed to evaluate the efficiency of using a magnetic field and/or sodium hypochlorite (NaClO) disinfection on secondary slaughterhouse wastewater effluent quality and by-products. Three groups of secondary slaughterhouse wastewater effluents were used: G1 was treated with NaClO only at 0, 2, 4, and 6 mg/L; G2 was treated with exposure to MF at 14,500 gausses, and G3 was pretreated with MF, then NaClO at the exact chlorine dosages and MF strength. The results showed an augmented effect when using a magnetic field as a pre-treatment step before NaClO treatment in the remediation of slaughterhouse wastewater over the use of any of them solely. The removal rate of COD and BOD increased by up to 26 and 20%, respectively, when pre-treatment with MF was employed as a mean percentage at all chlorine dosages, while TSS, TDS, and EC increased by 23.5 and 5.5%, respectively. Over and above, the removal rate for each TN and TP increased by 12 and 6.5% as a mean percentage at all chlorine dosages when using a combination of the two. In addition, pre-treatment by MF reduced the required concentration of NaClO from 6 to 4 mg/L, resulting in an 11% increase in the reduction rate of total coliform count, 8% increase in the reduction rate of fecal coliforms, and 10% increase in the reduction rate of E. coli and 5% in Salmonella via increasing the disinfection efficiency of NaClO. Finally, it decreased the concentration of Chloroform produced by more than 77.2% by using the higher concentration of NaClO (6 mg/L). The issue that approved the promising approach of using MF as a pre-treatment step in the treatment of slaughterhouse wastewater provides the advantage of using smaller dosages of disinfection, lowering the cost of the procedure process, and reducing the harmful concentration of DBPs.