Carbon/carbon (C/C) composites have strict requirements for their thermal properties in extreme environments, especially at high temperature, where their properties are crucial for long-term life. The structure of C/C composites is exceptionally complex and exhibits multi-scale characteristics, and their thermophysical properties are closely related to temperature. Therefore, exploring their thermal response and heat transfer mechanisms through experimental method is relatively costly. This paper constructs a multi-scale finite element model to investigate the influence of structure and manufacturing defects on performance, and analyzes the thermophysical properties of the composites at High-temperature. By constructing a micro-representative volume element (Micro-RVE) that includes fibers, matrix, and pores, and using a steady-state heat transfer analysis method, the influence of material phase distribution on performance is studied. At the same time, a Meso-RVE reflecting the layering form, needle punching effect and manufacturing defects is established, and the transient heat transfer analysis method is used to investigate the influence of the structural form on performance. Finite element analysis shows that, the simulation values of the three C/C composites of unidirectional fiber bundles, short-chopped fiber felts, and needle punched C/C composites show good consistency with the experimental results in the published literature. This paper uses numerical methods to calculate the thermophysical properties of C/C composites from room temperature to 900°C and explores their variation with temperature. The constructed multi-scale model provides an accurate and effective method for predicting the thermophysical properties of C/C composites and also provides new perspectives and insights for thermal-mechanical coupling analysis and structural design.