Welcome aboard Bob....
You should check to see if the Pirelli seals are still pliable and not featherd/shredded, if they are then order the stuff from Alaskan and replace all of it. Not only will it seal the night drafts out of the camper, but it keeps bugs from getting in there....nothing like a really mad yellowjacket in there when you get inside! New seals keep dampness out and heat in and critters out when you winter over. It is probably also due for a major sealing operation you can read about in this forum where you put in new butyl sealant under all the window drip rails and where each window is installed and especially any roof vents.
If the CO part of the Alaskan is too HIGH over the cab, too much air gets in and it can start to lift the top so I have heard. I can see where if you were doing 70 into a 45 MPH headwind how that might want to effect the top staying down as well. I have driven mine at 65-70 and can see the side of the top in my rear view mirror and it wasn't going anywhere but then again I probably have about 3" of space between the cab roof and the CO bottom.
I have the original mattress in the upper bunk. When you fold down the L & R side panes, place a pillow or something between them to rest the front panel on to keep it from crushing or abrading the Pirelli seal on each side panel. I have a 3" Memory Foam mattress that I take down and store on one of the dinette seats. If your mattress is too thick then the panels can't lay down as they should. It is a design feature you should carry forward if you replace the mattress and not get one too thick.
You have the #1 rated jacks for the Alaskan, but if they are hitting the SIDE of the upper section then they were mounted too CLOSE to the edge of the lower panel.
Even two sawhorses are not recommended...you need to support the floor really well when it is in the truck and the same goes for when it is dismounted. That can mean 5/8" plywood and per haps two or three more sawhorses as long as they are all the same height or they are not going to do a good job.
A complete cleaning of the water tank and pumps is advised and all systems like heat/'fridge/cooktop/stove need to be checked out as well as the propane tank and if it is full and how to access it for a refill and if it needs recertification.
I would suggest you read each and every post in the Alaska Camper section and probably more than a few "a-ha!" moments will jump out at you!
Don't be overwhelmed by all I have written, its maintenance and learning about your new-to-you camper! I'm on my second Alaskan after a Lance in between. They are kind of a cult thing, you either love 'em for their good and bad faults or you leave 'em for some other mfger.