The theory of microlocal analysis shows that the energy density associated with the high-frequency vibrations of a three-dimensional Timoshenko beam satisfies a Liouville-type transport equation. In the present application, the material of the beam is assumed to be isotropic. Its parameters are allowed to vary along the beam axis at length scales much larger than the wavelength of the high-frequency waves traveling in it. Moreover, the curvature and torsion of the beam are accounted for. The first part of the paper focuses on the derivation of the transport model for a single three-dimensional beam. In order to extend this model to beam trusses, the reflection/transmission phenomena of the energy fluxes at junctions of beams are described by power flow reflection/transmission operators in a subsequent part. For numerical simulations, a discontinuous Galerkin finite element method is used on account of the discontinuities of the energy density field at the junctions. Thus, a complete mechanical-numerical modeling of the linear transient dynamics of beam trusses is proposed. It is illustrated by numerical examples highlighting some remarkable features of high-frequency vibrations: The onset of a diffusive regime characterized by energy equipartition rules at late times. Energy diffusion is prompted by the multiple reflection/transmission of waves at the junctions, with possible mode (polarization) conversions. This is the regime applicable to the statistical energy analysis of structural acoustics systems. The main purpose of this research is to develop an effective strategy to simulate and predict the transient response of beam trusses impacted by acoustic or mechanical shocks.