Chapter 16 of
Classical and Quantum Mechanics via Lie algebras
contains a section on deriving stirred chemical reaction dynamics on a statistical basis. (It is silent about the space distributed case.)
Section 14G of the first edition of the Statistical Physics book by L.E. Reichl treats chemical reaction dynamics distributed in space. (The section seems to have been dropped in the second and third edition.) Unlike my claim in the original answer, Section 14G does not contain a derivation from statistical mechanics, but only one based on the general features of thermodynamically consistent fluid flow equations. However, a derivation from a generalized Boltzmann equation can be found e.g., in http://www.cmap.polytechnique.fr/~graille/papers/article1.pdf.
Form a more fundamental point of view, a reactive chemical system is modelled microscopically by a system of atoms whose Hamiltonian is given by the ground state of the corresponding electronic system in the Born-Oppenheimer approximation. At low energies, the atoms group themselves into molecules (defined by local minimum wells) and the Hamiltonian can be simplified to a classical force field describing the reachable energy landscape.
The dynamics of the mixed state is given by the standard Liouville equation for such a system. Some simplifications arise by approximating the mixed state by a Gibbs state of the form $e^{-S/k}$, where $k$ is the Boltzmann constant and the entropy $S$ is taken to have the form of a space integral of intensive fields multiplied by asymptotic one-particle field operators associated with the bound states (=molecules) of the system. Of course, this approximation leads to some neglect of microscopic degrees of freedom, which results in dissipative terms, producing to gether with the streaming terms (from the conservation laws) the traditional equations for distributed chemical reactions.
The dynamics for stirred reactions is obtained by assuming the intensive fields to be independent of space (hence only varying in time).
All this requires to work with a finite volume and typically periodic boundary conditions, letting the volume go to infinity in a thermodynamic limit applied at the very end of the caluclations.