The combinatorial mutation $\mathrm{mut}_w(P,F)$ for a lattice polytope $P$ was introduced in the context of mirror symmetry for Fano manifolds in [1]. It was also proved in [1] that for a lattice polytope $P \subseteq N_\mathbb{R}$ containing the origin in its interior, the polar duals $P^* \subseteq M_\mathbb{R}$ and $\mathrm{mut}_w(P,F)^* \subseteq M_\mathbb{R}$ have the same Ehrhart series. For extending this framework, in this paper, we introduce the combinatorial mutation for the Minkowski sum of rational polytopes and rational polyhedral pointed cones in $N_\mathbb{R}$. We can also introduce the combinatorial mutation in the dual side $M_\mathbb{R}$, which we can apply for every rational polytope in $M_\mathbb{R}$ containing the origin (not necessarily in the interior). As an application of this extension of the combinatorial mutation, we prove that the chain polytope of a poset $Π$ can be obtained by a sequence of the combinatorial mutation in $M_\mathbb{R}$ from the order polytope of $Π$. Namely, the order polytope and the chain polytope of the same poset $Π$ are mutation-equivalent.