Energy is only additive in that sense if the interaction between the constituents can be neglected. I'd not emphasize additivity too much. It's important though in thermodynamics/statistical physics when you find a way to handle a many-body system in some (often tricky) sense as an ideal gas. Then the total energy is indeed the sum over the energy of the constituents (particles, molecules, light quanta or, quasi particles). Already for a real gas the energy is not additive anymore in this sense.
After all this discussion, my conclusion is that the important difference between Newtonian and special relativistic physics is that as analyzed in terms of the space-time symmetry groups/Lie algebras, in Newtonian physics there's an additional conservation law for mass (i.e., there are 11 conservation laws from the physical realization of Galilei symmetry, i.e., a non-trivial central extension of the classical Galilei group, rather than 10 conservation laws from the physical realization of the Poincare group, which has no non-trivial central extensions), while there's none such additional conservation law in special relativistic physics.
Indeed, as
@Dale said in the previous posting, the important difference between energy and mass is that the former is a temporal component of a four-vector (energy-momentum four vector) of a closed system while mass is a scalar and associated with the energy in the center-momentum frame of this closed system. Since one can always calculate everything in the center-momentum frame, and there the invariant mass is just the total energy of the system, its conservation is just energy conservation when considered in this preferred (necessarily always inertial!) reference frame of a closed system.
It's of course a very delicate issue to discuss open composite systems. Even a covariant formulation of total energy and momentum as a four-vector is not unique in such a case. This lead to an age-old famous debate about the infamous factor-4/3 problem in the radiation-reaction problem for charged point-particle-like bodies. For that issue, see the very illuminating discussion in Chpt. 16 of Jackson's Classical Electrodynamics. It's amazing that there is still so much debate about this since the entire problem was analyzed completely by von Laue in 1911. The naive expression for the total four-momentum of a continuous system (like continuum mechanics or fields like the em. field)
$$P^{\mu}=\int_{\mathbb{R}^3} \mathrm{d}^3 x T^{\mu 0}(t,\vec{x})$$
is a four vector only if the local conservation law
$$\partial_{\nu} T^{\mu \nu}=0$$
holds, and then ##P^{\mu}## is also conserved (i.e., time-independent), i.e., it's only a proper four-momentum if the system is closed (concerning the exchange of energy and momentum).
To define in a covariant way energy and momentum of an open composite system one has to choose an appropriate preferred reference frame and then transform the energy and momentum from this inertial frame to an arbitrary other inertial frame or write the corresponding integral over the entire spatial volume as observed in the preferred frame in a manifestly covariant way. Then one still has to be careful how to interpret the so defined energy-momentum four-vector in each specific case. All this is nicely discussed by Jackson.