The scarey part of leaving a pool empty in Idaho or any freezing climate for that matter is the frost heaving the shell just like it does to the roads to McCall. Also, with an empty pool, floating the vessel out place is a very real possiblity. Also, the interior plaster doesn't bode well. Is it possible to keep the pools full year round? How hot and water are the flow rates of the water? The buildings probably consume the heat in the winter and the pools take 2nd priority? Summer you pobably have way more than you can use.
So the pool is a hillside installation and it will be essentialy "floating" in foam and a french drain, which is very good fore thought! I would have a soils & engineering firm develope a design to keep it on the hillside and evaluate the drainage systems to prevent it from looking like Hiway 55. I would expect that 8" walls and a 6" floor would do it but get engineering.
As far as foam to form the pool, it's a good choice as long it is sufficiently braced, but if you are using it for some insulating value, about 80% of your heat loss will be from the water surface. I would not use it on the bottom unless the actual foam is certified to bear the weight of the loaded vessel. Why not use the excavation as a form? Mountain soil can be tough.
Would you be using the PEX within the pool shell, if so let the engineer know that also. Does the hot water go through an exchanger? Is the shell the exchanger? Is there a risk of freezing if the source goes down? Is it a gylcol system?
A far as flexible plumbing, I would not expect that much movement and would worry if it were the case. I would however expect a substantial amount of movement between your deck and vessel, so create 'cold joints' at these points.
Very smart move installing some provisionary lines for future use. Size these accordingly and consider an entrapment potential as if they were going to be used, because you will love the pools so much that you will want them to look good for a long time, and in order to do that, you will likely want to "capture" the pool water, filter, heat it, sanitize it and ultimately preserve the plaster. Geo thermal water tends to trash plaster in a very short time. You could always sand blast & paint every year. My dad always told to to never invest in anything that eats or needs painted.