Abstract: To promote carbon neutrality, integrated energy systems (IES) have become the future of energy supply development, owing to their multi-energy coupling and cascade utilization features. Coordinated planning of IES with multi-functional areas (MFA-IES) is important in improving the system economy and reducing carbon emissions. However, with more multi-energy devices and a continuous increase in renewable energy generation, the impact of model non-convexity and multi-type uncertainties needs to be further studied. In this paper, a coordinated uncertainty planning method for MFA-IES is proposed. Firstly, energy supply/demand characteristics and the complementary relationships among MFA are analyzed in detail, with the formation of differentiated planning strategies for the area. Secondly, mathematical models of low-carbon retrofitted generators and hydrogen multi-mode utilization devices are established, and their low-carbon features are analyzed. An MFA-IES coordinated planning model under multiple uncertainties is proposed on this basis. To deal with non-convex constraints in the proposed model, a convex hull linearization method based on binary extension is utilized, and the corresponding iterative contraction algorithm is determined to solve the model efficiently. Finally, a real-case MFA-IES is used to verify the effectiveness of the proposed model and the adopted algorithm.