The hypostasis of estimation of hydraulic conductivity is a problem of optimization. Genetic algorithm is a method to search solution in a whole domain based on nature choice and population heredity, which can be used to solute the complex non-linear optimization problem including estimation of hydraulic conductivity. The result shows that the methods of estimation of hydraulic conductivity with genetic algorithm-support vector regression machine have some advantages, including good effect of estimation, improvement of the search efficiency. The result precisions based on GA-SVR satisfy the need of application and avoid the local optimization solution.