Continuum robots inspired by biological life forms are favored for their flexibility, compliance, and adaptability to confined environments. However, flexible structure and coupled dynamics include challenges, especially under external forces. This paper presents a dynamic-model-based control framework for a two-section planar-to-spatial tendon-driven continuum manipulator (P2S-TDCM), which integrates a comprehensive Euler–Lagrange model that accounts for tendon stiffness, viscous damping, and backbone flexibility. A genetic algorithm (GA)-optimized PID controller is designed and tested on deterministic and robustness-oriented tuning modes. To further enhance real-time robustness against external disturbances, an online disturbance observer (DOB) is integrated into the control loop to estimate and compensate for unmeasured external wrenches. Numerical results showed that the robust tuning strategy achieved consistently lower RMSE (up to ∼ 25% improvement compared to the deterministic approach) and reduced sensitivity to parameter uncertainties such as vertebra mass by ±2%, backbone Young’s modulus by ±5% under external tip forces. Experimental validation of the deterministic controller further confirmed the model’s accuracy and feasibility. The combined GA-PID-DOB framework improves trajectory tracking stability and disturbance rejection, establishing a robustness-oriented control for P2S-TDCM. This work demonstrates that integrating DOB-based compensation with GA-optimized control enhances robustness and 3D trajectory tracking in TDCMs. Future work will extend the framework to account for distributed external forces along the manipulator body and explore adaptive or learning-based controllers for real-time uncertainty compensation.