I'm trying to study classical electrodynamics on my own but I encounter problems all the time. I would like to ask the following two questions related to Maxwell's equations.
There are two sets of Maxwell's equations.
Maxwell's macroscopic equations:
$$\nabla\cdot\textbf{D}=\varrho$$, $$\nabla\times\textbf{E}=-\frac{\partial\textbf{B}}{\partial t}$$
$$\nabla\cdot\textbf{B}=0$$, $$\nabla\times\textbf{H}=\textbf{J}\texttt{+}\frac{\partial\textbf{D}}{\partial t}$$
Maxwell's equations in vacuum:
$$\nabla\cdot\textbf{E}=\frac{\varrho}{\varepsilon_0}$$, $$\nabla\times\textbf{E}=-\frac{\partial\textbf{B}}{\partial t}$$
$$\nabla\cdot\textbf{B}=0$$, $$c^2\nabla\times\textbf{B}=\frac{1}{\varepsilon_0}\textbf{J}{+}\frac{\partial\textbf{E}}{\partial t}$$
It is not clear to me when I can use the second set. How can it be called Maxwell's equations in vacuum when there is a charge density $\varrho$ and a current density J present?
And now to the second question. In isotropic media, the relationship between the electric displacement D and the electric field E is given by D=$\varepsilon$E, while the relationship between the magnetic field H and the magnetic induction B reads B=$\mu$H. But B is more fundamental than H, so why is the last relation usually written in this reversed manner?