With the continual expansion of network in military fields, traditional military organizations are confronted by new challenges. There is a great need to explore new theories and models to perform dynamic network analysis for Networked Military Organizations (NMOs). We propose a notion of Matter Network Model (MNM) for NMOs, which can be regarded as the infrastructure of modeling and analyzing for complex NMOs. It is the first time that the model of mechanisms is put forward and formalized in complex NMOs. Importantly, Markov Logic Network (MLN) theory is embedded into MNM, which is used to transform NMOs into Markov networks. Embedded with MLN, MNM has the abilities to inference, and even with the uncertain information. Moreover, an analysis model of MNM is put forward, which includes the analysis framework, analysis process model and inference algorithm of MNM. The work of the paper shows promise as an effective interface of dynamic network analysis for NMO, which can be regarded a complete analysis framework for networked military organizations or be integrated other applications for networked systems ..