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A Multi-Objective Optimization (MOO) problem concerning the thermal control problem of Multifunctional Structures (MFSs) is here addressed. In particular the use of Multi-Objective algorithms from an optimization tool and Self-Organizing Maps (SOM) is proposed for the identification of the optimal topological distribution of the heating components for a multifunctional test panel, the Advanced Bread Board (ABB). MFSs are components that conduct many functions within a single piece of hardware, shading the clearly defined boundaries that identify traditional subsystems. Generally speaking, MFSs have already proved to be a disrupting technology, especially in aeronautics and space application fields. The case study exploited in this paper refers to a demonstrator breadboard called ABB. ABB belongs to a particular subset of an extensive family of MFS, that is, of thermo-structural panels with distributed electronics and a health monitoring network.