In the traditional time delay estimation methods, it is usually implicitly assumed that the observed signals are either only direct path propagate or coherently received. In practice, the multipath propagation and incoherent reception always exist simultaneously. In response to this situation, the joint maximum likelihood (ML) estimation of multipath delays and system error is proposed, and the estimation of the number of multipath is considered as well for the specific incoherent signal model. Furthermore, an algorithm based Gibbs sampling is developed to solve the multi-dimensional nonlinear ML estimation. The efficiency of the proposed estimator is demonstrated by simulation results.