I plumbed the Driver's side tank line across and to a T-fitting, to tie both sides of the tank together.
The hose in the lower side of this pic is the passenger side tank hose joining the driver's side hose at the T-fitting, and then running into the "In" side of the water pump. Now, the pump can draw water from both sides of the tank equally.
I then plumbed the "Out" side of the pump into another T-fitting. This T-fitting is crucial, as it separates pushing water into your Hot Water side and Cold Water side. The line that comes off of that T-fitting(making a left turn) towards the top of the pic(or front end of the Jeep), is the line that heads up to the Heat Exchanger in the engine bay, making it's loop through the exchanger. The line that takes a right turn toward the bottom of the pic from the T-fitting is your cold water side.
In this pic, I'm pointing to the Hot Water line that's returning from the heat exchanger after making its loop through it.
The Cold Water line and Hot Water line later meet up at what's called a "Thermostatic Mixing Valve", which allows you to control water temperature.
I bought this one originally, but didn't end up using it in the system. I went with something else in the system which basically does the same thing, but we'll save that for last.
Hot Line goes in one side, Cold line in the other and out comes your regulated temperature water out of the bottom fitting. I believe this one ran me somewhere around $40 shipped, and I can't remember where I ordered it.
Anyways, now that I had almost all of my interior plumbing done, I could focus back on the Heat Exchanger and plumbing the Engine Coolant lines into it.
I ended up purchasing some stainless steel 1/2in female NPT to 1/2in barbed nipples online. I believe I got 5 of them for $25 shipped. The reason that I went with stainless steel and not simply cheap brass fittings from Home Depot, is because the Heat Exchanger itself is stainless steel. If I had attached two different types of metal together, in this case steel and brass, I would've developed what's called "Galvanic Rust" on the fittings.
I installed them onto the bottom of the exchanger using plenty of Teflon Tape on the threads. They need to be pretty damn tight in order to not leak coolant.
I figured out that the easiest way to plumb coolant lines into the heat exchanger, is to detach the coolant hose that runs from the top of the thermostat housing and into the top of the heater control valve, and simple loop that system back into itself, since it has constant coolant flow.
This is where it comes out of the thermostat housing at the front of the 4.0L. Engine coolant flows "Out" of the thermostat housing and into this hose, so keep in mind that coolant flow direction is important!
The other side of this hose runs along the passenger side of the engine valve cover and into the top of the heater control valve.
I unplugged the hose that runs into the top of the heater control valve and measured it as a 5/8" hose. I picked up a brand new one at the Auto Parts store for around $18. The new hose will be the return line coming from the heat exchanger.
I also picked up some 1/2in heater hose and some 1/2in to 5/8in heater hose connectors.