Tried to address some things for ya. You've got a lot of work ahead of you. Nothing I wouldn't do myself, but I have a LOT of experience on this truck.
Some notes on the cooling issues:
- First of all, you probably need to replace the water pump.
- Then, check that your electric fan is working.
- You have a leak on the overfill tank side, which won't do you any favors. Find that. From what you describe it's as if the overflow tank isn't even connected.
- Sounds like you also have a bad rad cap. I would do a complete flush and shotgun a lot of the parts in the cooling system that are easily replaceable.
Tapping sound seems a lot like a bad wheel bearing to me.
You need a complete brake overhaul. Pads, rotors, and fluid. I like Hawk LTS pads. They puke dust but they stop amazingly well.
Bounciness at idle - this would be pretty low on my list if I were you. But, vacuum leak, or manifold pressure sensor, or idle air control valve all come to mind as possibilities.
"-Do you think PS pump is bad and it killed the Fan Clutch since that pump runs the fan clutch?"
A 4.7 does not have a hydraulically driven fan. You have at least an electric, and maybe a mechanical with a thermal clutch.
"-Would you replace tensioner?"
If it has never been replaced, probably.
"-How do I fill the axle?
-Where is the fill hole?"
I'm not sure what you mean here. There is a front diff, but you didn't mention it leaking (never mind, found that part). The fill hole is up on the front diff, I don't recall exactly where. You check the level by removing the FILL screw and a little should just leak out. DO NOT REMOVE THE DRAIN PLUG UNTIL YOU HAVE CONFIRMED YOU CAN REMOVE/INSTALL THE FILL PLUG. Seriously. The fill and drain plug are both inset hex socket screws. One of them is lower than the other. I bet you can figure out which is which
"-Is hard clunky shifting due to needing a trans flush or drain and fill job with fresh fluids and not something more serious like UJoints? (Rides pretty darn smooth for an 11 yr old truck so I'm thinking maybe not UJoints)"
If you've never serviced the trans this is a pretty easy one. Yes.
"-Is leak from boot only possibly or is it axle seal that I know can happen on these things. What would the difference be?"
Last time I blew a CV boot, it threw thick, gross grease everywhere. That looks like an axle seal issue to me. Buuut...
Your steering rack is leaking. That's where all of your PS fluid is going. Might fix that obvious issue first and see where to go from there. Still need to check your front diff fluid level.