I moved my project (or pieces of it) back and forth to the airport multiple times to make working room in the shop. I think you can move the entire project minus maybe a piece or two in the 26' truck. The three pieces I'm not sure about are the compressor (how big is it?) and the two benches.
What I would do if I was you would be use your wing stand to move the wings. I'd attach the ailerons and flaps and maybe cleco on the tips. In addition, I would scab on a fixture to hold the HS to the wing stand and would mount the HS and elevators to that stand. I'd load that entire assembly first and put it front right in the box truck. I'd secure everything well, and make sure there were cushions to keep parts from touching and stiffeners/tape/spacers/whatever to keep the control surfaces from moving.
In the left hand side nose of the trailer, I'd store all of the tools. Maybe you can get moving boxes or whatever to secure them. Next, I'd insert the fuselage, tail first on the left side of the trailer, in a cradle of some sort, using the spar carry-through as the main tie-down point. You can run bolts through the holes in the carry through and hook to those. I'm not sure what you meant by securing the fuse using the holes in the fuselage, but the carry-through is a much better place to attach. Then, pad/secure the aft fuselage to keep it from moving around. Finally, I'd pile everything else (rudder, vertical stab, seats, etc) in the fuselage using appropriate padding. The only thing left at that point is maybe the compressor and the EAA tables, which may fit towards the back of the trailer, adjacent to the fuselage. If the project is near-complete, the EAA tables are handy, but if they don't fit in the truck, well, you don't need them badly at this point anyway... Alternately, you can make new ones if you need.
Here are some pictures that might give you ideas around the wing and fuselage stands. These are kind of in "storage mode" so all of the padding and straps are not in the picture...
Carry lots of extra tape, straps, cardboard, Harbor Freight packing blankets, 2x4's screws, drill with driver bit, etc. You'll be surprised at how much of that stuff you'll need.
And just a word of caution. Load up, secure everything, drive 2-5 miles and stop to check everything. Then ten more miles and do it again. Then 50, then every couple of hours. Nothing will ruin your day faster than something coming loose and bashing up your airplane parts.
Hope this helps.