The study investigated the phase transformation and microstructural comparison of two types of continuous alumina fibers with varying silica contents. These fibers were subjected to heat treatment at temperatures of 1100, 1200, 1300, and 1400 °C in air. By comparing the experimental results of the two different fibers, relevant influencing mechanisms were derived. The appearance of mullite phase in the fibers occurred when the heat treatment temperature reached 1200 °C. Variations in silicon content led to inconsistent pinning effects, resulting in differences in the occurrence of irregular structures on the surface of the two types of fibers. Following heat treatment at 1300 °C, the fibers exhibited scale-like and mosaic-like structures, accompanied by phase aggregation. Subsequent heat treatment at 1400 °C resulted in the fibers displaying layered structures composed of α-Al2O3 phase and undergoing significant changes in microstructure. Notably, the two types of fibers exhibited a significant difference in the presence or absence of a glass phase, and the addition of silicon oxide to a certain extent was found to inhibit the crystal transformation of Al2O3. Additionally, the experimental results were analyzed in terms of influencing mechanisms based on theories such as activation energy barriers and total free energy.