The heat cannot be effectively dissipated of lithium-ion battery during the long-term charge and discharge cycles process, which will lead to battery overheating to aging and even thermal run away. The battery thermal management system (BTMS) based on phase change materials is a passive cooling method, which can achieve the effect of cooling and heat dissipation without consuming energy. In this paper, a novel segregated-structure composite phase change material (PA-CNTs@BN X ) compose of carbon nanotube (CNTs) reinforced paraffin as “core” and modified hexagonal boron nitride (BN-OH) as “shell” through electrostatic force is proposed. And PA-CNTs@BN X with segregated-structure is constructed by hot-pressing method, which can further enhance its thermal conductivity in comparison to the composite counterpart with random filler distribution. In addition, the heat conduction paths in the micro-region are established by the addition of CNTs. PA-CNTs@BN 30 possesses highest thermal conductivity among PA-CNTs@BN X , whose values is enhanced 176 % compared with pure PA. Meanwhile, PA-CNTs@BN 30 have high reserved latent heat and could maintain its thermal reliability, which promoting its applications in BTMS. Novel segregated-structure PA-CNTs@BN X with binary fillers is successfully prepared by simple method, and it has important industrial significance in BTMS. • The composite phase change materials (CPCMs) with segregated-structure are prepared. • BN improves the thermal conductivity and anti-leakage of CPCMs. • Introducing the CNTs to provide more transmission paths in micro-region of CPCMs • PA-CNTs@BN 30 shows good cooling performance in BTMS.