Vic it sounds like you got it all figured out. That's smart thinking going vertical with the electronic components to take advantage of all available space.
I have a extra thought for you for the fuse box, if you raised the shifter up a bit and moved it closer to the back of the cab it would position it closer to your reach but it would also allow you to stand the fuse box on it's edge on the passenger side built into the console with a magnetic press release compartment door for easy access to the fuses in case you blow one so you don't have to stand on your head to get to them, it would also have the added benefit of freeing up some space over the ECU to hide other electronic components there instead of the fuse box, it would also open up more space in front of the shifter for even more electronic components to be mounted which would still be hidden by the console assuming you plan on extending the sides of the console under the dash all the way to the firewall.
*Edited like 20 times.