Wiener model structures have attracted considerable attentions due to their powerful modelling abilities to solve industrial problems. This paper considers a new class of Wiener model structure, which consists of a linear transfer function and a radial basis function (RBF) network. Based on this structure, the unstable zero-dynamics, the added disturbances and the approximation errors problems can be dealt with. Since the model parameters are assumed unknown, we develop a new indirect adaptive control scheme. It is a consensus that the certainty equivalence principle is the key that connects the adaptation algorithm with the control law. This paper explains that, for indirect adaptive control of Wiener model, this principle may not be applied directly. The main contribution of this paper is to address this issue by presenting a rigorous theoretical analysis. Representative examples including a simulated pH process control problem are studied to test the control performance. Comparison results indicate that the proposed controller has much wider applicability than some alternative methods, especially for its improved performance and smoother adaptation.