This is a very complicated model of the real world, and I think this sort of problem comes up whenever we move from "spherical cow" physics and math to modeling or simulating something? There's chaos in the system, and sensitivity to initial conditions which aren't known. It's like reading about the "3 body problem is unsolvable".
Maybe you look at this without the framework of PDEs, and simulate it. But the article implies that lava is heterogeneous, so you don't know how to model how each part of it interacts with the rest. I struggle understanding, for example, how the author uses the word "equation" to describe something this complicated.
So, maybe the ideal solution is a set of coarse descriptions of the lava flow's temperature distribution, likelyhoods for each, predictions of which you get depending on how much you know about the initial conditions. Probably fractal?