We present radial basis function (RBF) collocation methods for time-dependent space-fractional problems on general bounded domains. Building on a recently developed approach for accurately computing the integral fractional Laplacian of any RBF, we design collocation schemes for fractional heat and Stokes equations using extended-domain techniques. In particular, we propose a numerical Leray projection method for fractional Stokes problems, where both the discrete projection operator and the collocation scheme are formulated on extended domains to handle complex domains. Numerical results demonstrate the effectiveness of the proposed methods in solving time-dependent nonlocal problems on complex domains.