This paper intended to establish the challenges facing implementation of indigenous conflict resolution mechanism on land use management in Pokot Central Sub-County. The area has faced numerous challenges in managing land use and the application of traditional mechanism to solve problems related to land question. The use of indigenous means to resolve conflict is not fully recognized by government and the people. The objective that guided this study was: to determine the challenges of the implementation of the indigenous conflict resolution mechanism on land use management in Pokot Central Sub-County. The study employed qualitative and quantitative research design. The study was represented by 537 respondents selected from the following target population: national government administration; council of elders; households’ heads, land officers and disputants. Questionnaires and interviews schedules as research instruments were of a great help in ensuring that the required information was collected. The study found out that among the challenges facing ICRM is non-recognition by government and locals. The study concludes that their exist conflicts between modern and indigenous justice systems and recommend that The indigenous conflict resolution mechanisms need to be strengthened and given full power and trust it deserves