In the literature, it has been reported that the mechanical output per leg is less in two-leg jumps than in one-leg jumps. This so-called bilateral deficit has been attributed to a reduced neural drive to muscles in two-leg jumps. The purpose of the present study was to investigate the possible contribution of non-neural factors to the bilateral deficit in jumping. We collected kinematics, ground reaction forces and electromyograms of eight human subjects performing two-leg and one-leg squat jumps, and calculated mechanical output per leg. We also used a model of the human musculoskeletal system to simulate two-leg and one-leg jumps, starting from the initial position observed in the subjects. The model had muscle stimulation as input, which was optimized using jump height as performance criterion. The model did not incorporate a reduced maximal neural drive in the two-leg jump. Both in the subjects and in the model, the work of the right leg was more than 20% less in the two-leg jump than in the one-leg jump. Peak EMG-levels in the two-leg jump were reduced on average by 5%, but the reduction was only statistically significant in rectus femoris. In the model, about 75% of the bilateral deficit in work per leg was explained by higher shortening velocities and the remainder was explained by lower active state of muscles during the two-leg jump. It was concluded that the bilateral deficit in jumping is primarily caused by the force-velocity relationship rather than by a reduction of neural drive.