Welcome to the world of motor homing....
The body roll on an F-53 is a common problem. There are many fixes. There are aftermarket "sway-bars" you can buy and add.
There is what is called a CHF, or "Cheap Handling Fix". This is accomplished by moving the sway bars and track bars to different attachment points on your chassis. There is a lot of info in regards to the CHF here on iRV2.
I purchased Sumo Springs, https://www.supersprings.com/products/sumosprings/
. After a lot of research, I went with the Sumos to solve my body roll. They work as designs and I can take Interstate exit turns without almost coming to a stop. Not cheap but they make your ride more comfortable and controlled. They will not smooth the road out - it is not what they are designed to do.
Shocks - I believe Bilsteins were original equipment and still are. Have you had an eye ball on them? Are they the original shocks Are they leaking? If they need to be replaced - it may help your ride a tad.
Bottoming out. Mine does this too, even with the Sumos. Normally at high-way speeds when entering or exiting an over pass or other wavy part of the road. You really aren't bottoming out - just hitting the "stops" in the suspension. The one way I figured out to stop this was slow down when I saw the vehicle in front of me "bouncing" or just watch the pavement and armed with the knowledge engineers in America haven't figured out how to make a smooth transition from terra firma to a bridge structure.
Banks Air Intake System. People spend a lot of money to add these systems to their rig. It is suppose to add horse power to your V-10 and perhaps better milage. Before you remove it, why not look in to installing some noise insulation on the inside of your "Doghouse", the inside engine cover. I have read good results about this procedure.
Lots of squeaking is sometimes part of the experience. It is an unfortunate part the experience. Your rig is made of steel, wood, plastic, etc. all mounted on a truck chassis. And riding over roads not well maintained takes its toll unfortunately. One thing we learned as we go is proper packing of the cupboards and cabinets. Dishes, pots and pans and the like can add to the cacophony..... Also proper lube of the chassis may help in this area.
Also as second owner, did you get the maintenance records from the original owner? They can tell you a lot.
I am not sure if this is your first motor home or not, but if it is, I'd do some weekend camping to get to know ALL the areas of your motor home, plumbing, electrical, generator, chassis, house batteries, engine, to name a few.
A two week trip to Colorado sounds like a lot of fun bit should not be a learning experience.
Lots of good info here on iRV2 - good luck....