Maize based farming systems were compared for 6 years in Chuka and Thika in Kenya. High input organic system yields equal to conventional except in year 1 at Thika. Maize-bean intercrop in low input organic systems yielded as conventional one. High and low input organic production costs were higher than conventional ones, but. From year 5 organic was more profitable than conventional in the high input systems. Conventional systems exported more nutrients than organic systems.