We provide a framework for calculating holographic Green’s functions from general bilinear actions and fields obeying coupled differential equations in the bulk. The matrix-valued spectral function is shown to be independent of the radial bulk coordinate, and hence, free from renormalization ambiguities. Applying this framework we improve the analysis of fluctuations in the D3/D7 system at finite baryon density, where the longitudinal perturbations of the world-volume gauge field couple to the scalar fluctuations of the brane embedding. We compute the spectral function and show how its properties are related to those of the quasinormal mode spectrum. We study the crossover from the hydrodynamic diffusive to the reactive regime and the movement of quasinormal modes as functions of temperature and density. We also compute their dispersion relations and find that they asymptote to the lightcone for large momenta.