Conventional bolts frequently fail under large deformations due to stress concentration in soft rock tunnels. In contrast, yielding bolts incorporate energy-absorbing mechanisms to sustain controlled plastic deformation. This study employed FLAC3D to numerically investigate the pull-out, shear, and bending behaviors of yielding bolts, evaluating their support effectiveness in soft rock tunnels. Three-dimensional finite difference models incorporating nonlinear coupling springs and the Mohr–Coulomb criterion were developed to simulate bolt–rock interactions under multifactorial loading. Validation against experimental pull-out tests and field measurements confirmed the model accuracy. Under pull-out loading, the axial forces in yielding bolts decreased more rapidly along the bolt length, reducing stress concentration at the head. The central position of the maximum load-bearing capacity in conventional bolts fractured under tension, resulting in an hourglass-shaped axial force distribution. Conversely, the yielding bolts maintained yield strength for an extended period after reaching it, exhibiting a spindle-shaped axial force distribution. Parametric analyses reveal that bolt spacing exerts a greater influence on support effectiveness than length. This study bridges critical gaps in understanding yielding bolt behavior under combined loading and provides a validated framework for optimizing energy-absorbing support systems in soft rock tunnels.