If anything, the point of the article is that MORE things should be priced in. Nature's value should be analyzed from a monetary point of view and you shouldn't be allowed to destroy it at 0 cost.
The fact that “money” is still involved has nothing to do with this argument. Even the Soviet Union issued currency.
We do it the same way we do with everything else:
> The economy of the United States is that of a highly developed country with a mixed economy
> A mixed economy is variously defined as an economic system blending elements of a market economy with elements of a planned economy, free markets with state interventionism, or private enterprise with public enterprise.
Getting back to your question:
We establish a market for this, guided/corrected by state intervention if and when needed.