The layered synchronous water injection technology in oilfield has such characteristics as strong nonlinearity, interlayer interference, time variation and complex model. The traditional control strategy based on the model often causes system unstable and regulation time too long, thereby making control effect unsatisfactory. To satisfy the requirements of layered synchronous water injection technology, this paper designs a flow controller based on adaptive fuzzy control algorithm with variable universe. The universe will change with variables parameters by adjusting extension-contraction factor. The experimental verification show that the system has good control performance, strong adaptability and short measurement and regulation time with the introduction of variable universe adaptive fuzzy control algorithm into flow control system of layered synchronous water injection technology