The emphasis on environmental protection and energy security has promoted automobile engine technology toward low emission and economy. While the traditional port fuel injection engine can hardly meet the latest regulations and requirements, the gasoline direct injection (GDI) engine becomes a hot research topic because of its potential to reduce fuel consumption and emissions. Since injection timing has a determining effect on overall engine performance, this paper aimed to investigate the injection timing effects on mixture formation and emissions. A validated three-dimensional numerical simulation model of a 4-stroke GDI engine combustion chamber was adopted. In a previous work (Part A), the in-cylinder combustion process has been discussed. In this study, the simulation results demonstrate that with the injection timing advancing, the fuel–gas mixture was more uniformly distributed and combusted more completely; the CO, UHC, and soot had decreased sharply by 80.6, 99.2, and 97.5%; the NOx emission increased by 151.7%. The optimized injection timing for this case was 300 CA BTDC. Moreover, this paper studied the in-cylinder views of injection timing effects on mixture formation and emission, providing reference to optimize injection of GDI engine.