I did a 400 mile section with my dog last year about a month after I got him, and about that many miles in 1-4 day trips over the last few months. I have a similar husky mix around 55 pounds.
Hopefully I have some worthwhile ideas, if nothing as useful as a dog thru-hiker.
I had to carry my dog over stiles at first. Now he can climb them and jump or squeeze under most barbed wire fences. Maybe not the best thing for him to know, but oh well. I've never had issues with 'natural features'
Food:
He carries his own food most of the time. About a quart of food a day. I think it was a little over a pound per day, or a bit more than double his normal food quantity (we're pretty active off the trail as well). We usually do 25 miles or so a day. If I hit the trail with him for a longer hike now I'd plan for closer to 30s. We rarely go more than 3 full days (or 4 total days) between resupplies.
I did mail drops so that I could ensure that my dog (and myself) had access to high quality food. I feed my dog something between premium and super-premium quality food. In towns I supplemented his diet with fresh stuff, just like I do for myself. Meat, cheese, wet dog food, etc.
Primitive/sporting dog breeds are amazing hikers as long as you take care of their pads and don't hike them in the heat.
In warm weather: Start at or before dawn. Siesta from 11 AM till 3 PM or so, and finish up your day. The siesta also gives your dog a chance to eat/drink and let the food settle in his stomach. Stop frequently to give him a chance to drink.
You don't want to shave the coat of a dog like that. But a clipping when you get rid of your warm weather gear might be nice. Down to 3/4" or so. Anyone who tells you that a dog's coat helps keep him cool in the summer failed middle school physics. Take advice from vets, who care about overall health. Not breeders, who see a dog that is out of conformation (doesn't look like a breed standard) as a bad thing.
Pad care: Stay off roads. Your dogs pads will also get more worn when he's on leash and following your pace instead of his own. Check them every afternoon/evening. If they start to wear you zero until they are good.
etiquette/manners:
Dogs don't drink from water sources, unless it's big enough to swim in. Dip water out, and teach him to drink from his bowl.
Dogs don't belong in shelters
No dogs allowed means no dogs allowed
If your dog is disturbing others at a shelter/campsite it's your obligation to pack up and hike on. If there is a dog/dog problem, hike on.
If you're in the thru-hiker bubble you might just want to avoid shelters entirely unless your dog is super well-mannered.
Don't let him bother people that don't like dogs,
Don't let him bother people that are eating.
Gear:
use the bottoms of 2L soda bottles for food/water containers. 1L bulk yogurt containers work as well. Sand down the edges.
Wolfpacks make great dog packs.
I'm trying this stuff to help with his pads. I don't think it's necessary on dirt trails, but I'm doing a lot of road running now, and my dog's pads restricts how often he gets to run with me:
http://www.amazon.com/MUSHERS-SECRET.../dp/B001UIGQ22 Friend of a friend runs dog sleds and swears by this stuff.
I carry my dog's water. He drinks almost as much as I do.
Town strategies:
Not many places allow dogs anymore on the trail. Too bad, too many bad owners.
I never figured out great solutions here. I have a 'Velcro dog'. At home he follows me to the bathroom and waits outside the door. He refuses to be separated from me unless he's with another friendly person. That would become a huge problem that I'll need to have solved before I really think of doing another trip where I need to resupply with the dog. I thought I could tie him up with a metal lead, but he escapes every type of constraint (although once he's escaped and figures out where I am he just waits outside the door of the building I'm in).
I pretty much ended up yogi-ing someone to watch my dog while I picked up our maildrop and looked for a quick shower in one town. Not ideal.
Always leash the dog near cattle/livestock, on private property easements, busy areas, near roads, as you approach shelters/other hikers, and places that require leashes.
I keep a leash (
http://www.myraddog.com/ddleash.html) around my waist and clip it on my dog when needed. Even if he has perfect manners, other hikers would much rather see your dog on a leash as they approach.