For starters, long bones (which would include the metatarsals of your feet and your toe bones) do not lengthen once you stop growing. Here is an easy primer on bone lengthening: http://www.mananatomy.com/basic-anatomy/growth-long-bone
The actual causes of your foot lengthening as you age are varied, but sorry, do not include longer bones. Let's look at a skeletal image of the foot (the side view is of the inside of your foot, looking out)
Notice a few things: first of all, just how high the bony structure of your arch really is. There's a long way to go from the top of the longitudinal arch to the ground. It doesn't take a physicist to realize how much length that would add to your foot if that arch completely flattens.
Secondly, see the black lines in the mid foot (overhead picture)? Those are the various joints of your mid foot, and their job is to rotate to accommodate uneven surfaces.
Here is a picture of the ligaments that pass from your calf under your foot:
All your life, every step you take, those ligaments and tendons stretch out (as your arch lowers to absorb force) then need a good deal of elasticity to spring back into place for the next step. Guess what your body loses as it ages??? Elasticity. Your skin, tendons, etc all suffer from a decrease in elasticity as you age. So guess what? All those spaces between all those bones, including those that hold up the bony arch, don't spring back like they used to. Little by little your arch gets a bit lower to the ground, the spaces between the bones get bigger (as the ligaments between the bones loosen), and your foot takes up more space.
As for thru hikers, that is a lot of cumulative stress placed on the elastic and dynamic components of the foot. They don't have nearly as much time to recover their elasticity as what we are used to (because as was mentioned earlier, most of us don't normally walk 25-35 miles a day, every day, all day…). Sometimes you can recover it after a few months, sometimes you can't (and then end up with permanently longer/wider feet).
And Roger, I'm a tad disappointed to hear you bring up the "our ancestors" argument as to why we don't need shoes….the fact is that YOU grew up wearing shoes, so your own bones and muscles developed in shod feet (or at least mine did…and most people in the first world). So as your growth plates closed, your muscles adapted, your neural connections and balance centers learned to walk, and run, and jump…you did that while wearing shoes. Or maybe you didn't, but again, most of us did. And unless you are hunting and foraging for food all day, skinning hides to make your shelter, etc, your little supportive muscles all over your body, not just the hip ones, are going to not work so well. Compared to our ancestors even of just a few hundred years ago we are totally soft physically. I'm pretty sure a marathon champion would not be able to chop down a huge tree, drag it home, chop it up, skin a moose, plow his own field….you get my drift?
Knees and hips? It's a whole kinetic chain my friend. Your hips control the rotation and alignment of your knees, which control the rotation of your tibia, which have a direct connection to the movement of your arch. So having weak hips, which sooooo many of us do, actually can lead to a markedly decreased ability of your arch to spring back once unloaded.
As for western ideals of feet..you totally misunderstood me. It was not a judgement on the attractiveness of such appendages…I work with feet a lot. Pretty feet, handsome feet, calloused feet…They smell, they are sweaty, they have fungus, thickened yellow toenails, wounds… Sorry, they're nasty.
:)
EDIT: added bit about thru hikers, to address the OP