Mosquitoes are considered the main vector for several diseases. Fortunately, numerous strategies have been adopted to control mosquitoes. However, traditional insecticides have hazardous impacts on the environment and living organisms. Thus, the present study attempted to discover new compounds for use as alternatives to traditional insecticides with the same potency. In this study, two metal organic framework compounds were evaluated as larvicidal against Culex pipiens. In addition, their effect on some physiological parameters was addressed by using FTIR technique. The results revealed significant differences (increasing or decreasing) in all tested parameters in both treatments; however, Fe-MOF was more effective than Mn-MOF during all stages for larvae after application. It was concluded that, given their acute and chronic effects, these compounds can be used in the control program against mosquitoes.