I like to put my spare folding tire in a zip lock bag to keep dirt off of it. If you get a tiny bit of sand inside a tire, it will eventually wear a hole in your inner tube. And because a tire is pretty dense, it usually is in the bottom of a rear pannier.
I can't quite figure out how you mounted a platform rack on your fork. Next time you take some photos, could you get a closeup of that rack and mounting? That is one of several reasons that I really wish Thorn put the canti posts on the front of the fork like everybody else does, on my Sherpa and some other bikes I have a small platform on those canti posts on the front of the fork.
It is not often that I see a bike more loaded down than my Nomad was on my first day in Iceland, but this one looks like it is. You have teh right bike for that kind of load.
I do not see a pump on your bike. If you packed it away to avoid theft, that is understandable, I have done that on some trips. But I usually keep my pump on my frame.