Thank you so much for the info and pictures!
Getting the 84906880 harness and auxiliary battery fuse block would definitely be the easiest and cleanest method to do this. I guess my only remaining question is the underhood junction/fuse block (X50A on the diagrams) that's on the driver's side right beside the spot where an auxiliary battery goes. Currently, in the single battery gas setup, there is a wire running from the battery on the passenger side around the firewall to this junction block. It's fused on top of the battery at 175A. It only goes to this junction block and doesn't have any other branches from the harness. From everything I can tell from parts pictures, the 84906880 replaces this wire with these differences: it's fused at the main battery at 400A, fused at the other end at the auxiliary battery at 400A, and has a short dog leg coming off the auxiliary cable terminal to loop over to this junction block. With the 400A fuses on both end of the 84906880 harness, that junction block just went from 175A to 400A circuit protection without any other changes, which doesn't seem very good to me.
I can't find an upfitter wiring diagram that shows how this is handled at the X50A junction block in a single alternator diesel truck. It only shows this junction block on the dual alternator diagram, even though I know it's there in both applications.
In this situation, it might be best to determine an appropriate cable gauge to use to go between the batteries and just run my own custom battery cable with a 400A fuse and leave the factory junction block wire and 175A circuit protection in place for that junction block. I hate to start disturbing very much of the factory wiring if I can help it.
Basically, I need to get two 400A mega fuses, appropriate cable size and terminal ends, auxiliary fuse block to go on top of the new battery and just leave everything else as-is. Does this sound correct?