Terephthalic polyesters are important engineering plastics and can crystallize into multiple crystal phases, including the mesophase in processing. However, the formation process and structural characteristics for the unique long-range ordered mesophase of terephthalic polyesters are still not well understood. Herein, we investigated the crystal polymorphism, crystallization kinetics, phase transition, and mechanical properties of a medium-chain terephthalic polyester, poly(hexamethylene terephthalate) (PHT). A new long-range ordered mesophase (named as the δ phase) is discovered for PHT during quiescent melt crystallization at a low crystallization temperature (T c = 10−30 °C). However, the α and β crystal phases are crystallized at a medium (40−80 °C) and high (90−130 °C) T c , respectively. The mesomorphic δ phase has a long-range order with a layered structure and inclined chain packing, which shows faster chain relaxation and smaller lamellar thickness than the α and β phases. The mesomorphic δ phase is metastable and converts into the stable β phase upon heating or high-temperature annealing. Mechanical properties of PHT can be well tuned by crystal polymorphs. The mesomorphic δ phase of PHT has good transparency and ductility, while the α and β phases possess a higher yield strength and modulus. This work provides an in-depth understanding of the mesophase formation and complex crystal polymorphism of terephthalic polyesters.