This paper presents an innovative approach to high-temperature health monitoring of aircraft structures utilizing an ultrasonic guided wave transmission and reception system integrated with a zirconia heat buffer layer. Aiming to address the challenges posed by environmental thermal noise and the installation of heat buffers, which can introduce structural nonlinearities into guided wave signals, a composite guided wave consisting of longitudinal and Lamb waves was proposed for online damage detection within thermal protection systems. To effectively analyze these complex signals, a hybrid damage monitoring technique combining variational mode decomposition (VMD) and fuzzy entropy (FEN) was introduced. The VMD was employed to isolate the principal components of the guided wave signals, while the fuzzy entropy of these components served as a quantitative damage factor, characterizing the extent of the structural damage. Furthermore, this study validated the feasibility of piezoelectric probes equipped with heat buffer layers for both exciting and receiving ultrasonic guided wave signals in a dual heat buffer layer, a one-transmit-one-receive configuration. The experimental results demonstrated the efficacy of the proposed VMD-FEN damage factor for real-time monitoring of damage in aircraft thermal protection systems, both at ambient and elevated temperatures (up to 150 °C), showcasing its potential for enhancing the safety and reliability of aerospace structures operating under extreme thermal conditions.