•Intraseasonal fluctuations in the abyssal South China Sea are characterized.•The variabilities are closely related to topographic and planetary Rossby waves.•Surface perturbations serve as the major energy source for the deep fluctuations.•Energy is radiated across layers through pressure work and damped by dissipation.•This study highlights a universality in the intraseasonal energetics of deep ocean. Energetics of the abyssal ocean account greatly for the redistribution and dissipation of global oceanic energy. In this study, we characterize the intraseasonal fluctuations in the deep South China Sea (SCS) and evaluate the relevant energy budget using observations and numerical simulations. The results indicate substantial geographical inhomogeneity in the intraseasonal energy reservoir. The high-energy zones are located in the northwest of the Luzon Strait, northern slopes, deep western boundary current region, and southwestern cyclonic gyre region, where the intraseasonal fluctuations account for about 70% of the deep energy variability. Vorticity and divergence patterns of the intraseasonal motions are suggestive of quasigeostrophic dynamics, which are mostly attributed to the hybrid topographic–planetary Rossby waves. The flow field exhibits a weak lateral shear and appears to have symmetric instability with negative vorticity skewness, particularly over the sloping topography. Energetics analysis demonstrates that the intraseasonal fluctuations in the abyssal SCS obtain energy primarily from the upper layer through pressure work, while secondarily from advective transport and cross-scale transfer due to instability of the deep circulation. To reach equilibrium, the energy gained is mostly damped by dissipations. As another reference in the marginal sea with intensive mixing, our study highlights the potential universality in how the intraseasonal energy is fueled and dissipated in the abyss.