To improve the flame propagation, combustion stability, and uniformity of the temperature field, multi-position injection is applied in a dual-mode combustor by controlling heat release in different locations. Using the chemical reaction of the finite rate combustion model and the detailed reaction mechanism of hydrogen combustion as described by Jachimowski, the influence of different multi-position injection patterns in a dual-mode combustor is analyzed. The one-equation Large Eddy Simulation (LES) turbulence model was chosen to define the sublattice turbulent viscous terms in a three-dimensional scramjet model. Based on a combustion chamber, the effect of the injection equivalent ratio (0.35–0.70), the relative position of the nozzle holes, and the injection pressure on the combustion process and flow field characteristics are analyzed with multi-position injection. The combustion efficiency, total pressure recovery coefficients, and pressure distribution under different operation conditions are compared. We observed that the combustion intensity increases and the upstream combustion shock string distance becomes greater with increased equivalent ratios. When the global equivalent ratio of multi-position injection remains unchanged, the arrangement of nozzles with the small injection spacing, i.e., two injection holes arranged face to face on the upper and lower walls, or the setting of multiple injection holes with the same pressure, can effectively increase the stability rate of the combustion flow field. In addition, the combustion efficiency at the outlet and the internal pressure of the combustion chamber in the stable state are also improved, relative to the increased total pressure loss.