Extracting high-purity and structurally intact hemicelluloses from lignocellulosic fibers is a prerequisite to reveal their structures and realize high-value utilization. Delignification is usually performed before hemicellulose extraction to break the covalent bonds between hemicelluloses and lignin for effective separations, but usually leads to toxic by-products and hemicellulose degradation. Peracetic acid (PAA) is an environmentally friendly oxidizing agent, which is more selective for delignification and has less effect on the primary structure of hemicelluloses. However, the yields and chemical structures of hemicelluloses extracted at different PAA delignification conditions are not clear, which greatly hinders its research and application. Consequently, the response surface methodology (RSM) was used in this study to optimize the process parameters of PAA delignification. With the increase of temperature or time, the yield of holocellulose decreases, and the hemicellulose yield increases first and then decreases. With the increase of delignification degree, the hemicellulose yield increases significantly. The degree of PAA delignification also has a significant effect on the chemical structures of extracted hemicelluloses; hemicellulose samples extracted from highly delignified holocelluloses have a higher xylose unit content, molecular weight (MW) and degree of substitution by acetyl groups (DSAc). The tert-butanol solvent exchange or ball milling treatments on holocelluloses significantly increase the hemicellulose yields, by avoiding the hornification and improving the accessibility of holocellulose. This study will provide theoretical and technical support for the efficient separation of hemicelluloses.