The aim of the study was to implement a specific training program to improve basketball free throws by using an innovative system called “system and technical device designed for motor learning process in the field of sports science and physical education with direct applicability in basketball specific training-free throw improvement”, as well as to evaluate the level of free throw effectiveness. We also aimed to highlight the differences in progress between the experimental and control groups for three age categories U14, U16, and U18 male juniors. The system and the device for detecting the ideal trajectory of the ball were provided by a high-speed video camera which captured the images and projected them in real-time onto a projection surface that was placed in front of, or to the side of the athlete, depending on the subject’s preference, provided that this projection surface is in the performer’s field of vision. The research took place from April 5th to July 10th 2021 and phased as follows: initial testing, implementation of the experimental 12-week free-throw training program (one individualized training session per week lasting 120 min), and final testing. The study included 360 subjects aged 13–14 years, who were grouped according to gender and team sport played. The evaluation was done by three tests: the FRB test (standardized test), the Shoot-Run test, and the 10 experimental throws test. The results of the study in all three motor tests showed that by implementing the innovative system that was designed for motor learning, the effectiveness of free throw shooting improved significantly in the players of the experimental groups in all age groups (U14, U16, U18), thus evidencing a positive, upward dynamic in relation to the increasing age category. In all three motor tests, the progress of the experimental groups was superior to the control groups as a result of the implementation of the experimental exercise program using the innovative system and device that was designed to improve free throws. The results of the study highlighted the effectiveness and opportunity of the implementation of innovative technologies in the process of training and evaluation of basketball specific free throws.