Latin dance attracts many young dancers globally. While these adolescents exhibit flexibility and imitation skills, their muscular strength and neuromuscular control often fall short, making complex movements challenging. Thus, incorporating functional training methods is essential for enhancing performance and reducing injury risk. This study, a total of 30 adolescent female Latin dancers aged 12–14 years with at least one year of training and competition experience were recruited for this study and randomly divided into two groups: One group of 15 students (average height 154.37 ± 3.82 cm, average weight 45.31 ± 5.29 kg) received traditional Latin dance training, and the other group of 15 students (15 students average height 154.73 ± 4.28 cm, average weight 44.63 ± 4.37 kg) received traditional Latin dance training and based on traditional Latin dance training, functional exercise was carried out for 12 weeks. A Vicon motion capture system, force platform, and electromyography were used to collect biomechanical data. Paired samples t-tests assessed significant differences between groups pre- and post-intervention. The experimental group showed significant improvements post-intervention: in the sagittal plane, ankle joint angles improved by 14.01% to 52.21% (p < 0.001); in the coronal plane, knee joint angles increased by 0% to 31.21% (p < 0.001) and 66.67% to 100% (p < 0.001); in the horizontal plane, hip joint angles improved by 4.99% to 76.00% (p < 0.001). Muscle activation showed significant increases in gastrocnemius lateral (p = 0.016), gluteus maximus (p = 0.001), tibialis anterior (p = 0.014), and rectus femoris (p < 0.001). Functional training enhances joint flexibility, muscle activation, balance, and overall performance in adolescent Latin dancers. Integrating functional training into regular routines can improve athletic performance and lower injury risk, informing the development of targeted training programs.