To investigate the variation patterns of spectral characteristics of main branches in fruit trees due to uneven distribution of growth, pruning, and fruit quality, as well as to determine the optimal fruit vi-bration harvesting, a vibration differential model of tree branches was constructed using the concen-trated mass method. A three-dimensional model of the fruit tree was built using finite element software. The spectral characteristics of each branch were obtained using the linear sweep frequency method. The method of changing the mass of each branch was employed to simulate the variation in branch mass. The frequency of occurrence, mean acceleration, and coefficient of variation of the inherent frequencies were used as evaluation indicators. The results revealed that when the vibration frequency of the fruit tree was at the peak frequency in the tree trunk spectrum, the frequency of occurrence and mean accel-eration were optimal. And the coefficient of variation of branch acceleration was less than 1, indicating a moderate dispersion. Additionally, reducing the branch mass resulted in an increase in the peak fre-quency of the tree trunk spectrum. Therefore, the growth, pruning, and uneven distribution of the branches in fruit trees can alter the spectral characteristics. When harvesting fruit by vibration, selecting the peak frequency in the trunk vibration spectrum as the excitation force frequency yields the best fruit detachment.