Hamiltonian simulation is believed to be one of the first tasks where quantum computers can yield a quantum advantage. One of the most popular methods of Hamiltonian simulation is Trotterization, which makes use of the approximation $e^{i\sum_jA_j}\sim \prod_je^{iA_j}$ and higher-order corrections thereto. However, this leaves open the question of the order of operations (i.e. the order of the product over $j$, which is known to affect the quality of approximation). In some cases this order is fixed by the desire to minimise the error of approximation; when it is not the case, we propose that the order can be chosen to optimize compilation to a native quantum architecture. This presents a new compilation problem -- order-agnostic quantum circuit compilation -- which we prove is NP-hard in the worst case. In lieu of an easily-computable exact solution, we turn to methods of heuristic optimization of compilation. We focus on reinforcement learning due to the sequential nature of the compilation task, comparing it to simulated annealing and Monte Carlo tree search. While two of the methods outperform a naive heuristic, reinforcement learning clearly outperforms all others, with a gain of around 12% with respect to the second-best method and of around 50% compared to the naive heuristic in terms of the gate count. We further test the ability of RL to generalize across instances of the compilation problem, and find that a single learner is able to solve entire problem families. This demonstrates the ability of machine learning techniques to provide assistance in an order-agnostic quantum compilation task.