Advancements in the defense industry are paramount for ensuring the safety and security of nations, providing robust protection against emerging threats. Among these threats, hypersonic missiles pose a significant challenge due to their extreme speeds and maneuverability, making accurate trajectory prediction a critical necessity for effective countermeasures. This paper addresses this challenge by employing a novel hybrid deep learning approach, integrating Convolutional Neural Networks (CNNs), Long Short-Term Memory (LSTM) networks, and Gated Recurrent Units (GRUs). By leveraging the strengths of these architectures, the proposed method successfully predicts the complex trajectories of hypersonic missiles with high accuracy, offering a significant contribution to defense strategies and missile interception technologies. This research demonstrates the potential of advanced machine learning techniques in enhancing the predictive capabilities of defense systems.