I'm no expert but here are some items I've had a little experience with regarding trailers. My boats are currently a Hunter 28 (28' X 10.5' beam) (7800 lbs ) on a dual axle trailer (15,600 lbs) load range and a Shock 25 (25' x 8' beam) ( 2100 lbs) on a dual axle trailer with 7500 lbs load range.
The issues I've seen with Trailers generally have more to do with how the keel fits on the bed and less about the pads. Does the new boat have a wing keel or is it a fin and how does this match with the boat currently on the trailer. You may need some 2x8 or 2x10's to provide support for the keel and your keel guides may need to be adjusted
Also, typically once the pads are adjusted, you'll most likely have to adjust the bow roller and winch mount so things sit tight against the winch. You don't want the boat bouncing around.
The thing to remember is that the bulk of your weight is in the keel, The boat itself is relatively light compared to the Keel mass, so getting the keel mounted properly is the key to success. The pads just keep the boat from falling over, there shouldn't be much weight on the pads or you risk oil canning the hull. I often move pads when painting or cleaning the hull and just snug them back up by hand once I'm done
Also, be sure to get the boat mounted right so you have the proper tongue weight, you don't want the boat to far back and end up with a negative tongue weight.
Lastly, you mentioned you have 2 3500 lb axles, This is a barely adequate for your new boat. Here's the math:
3500 lbs X 2 = 7000 lbs carrying weight (assuming the tires carry the max 1750 lbs )
Boat 5400 lbs + trailer (??1500 lbs) + boat equipment (?? 500 lbs) = 7400 lbs
Your about 400 lbs overweight. Check the tires, Hopefully they are trailer tires and not Passenger or Light Truck tires. There will be a Max load value on the side wall. Do note, not all tires in a load range will support the same weight. I have seen Load range E trailer tires with everything from 1750 lbs to 3900 lbs weight capacity, this is the difference between carrying 7000 lbs or 15,600 lbs on a dual axle trailer.
Bottom line from the limited details, the new trailer is marginal, and a single 600 mile trip could be OK, IF you take it slow and have good tires, Your not looking to trailer the boat around the country so once its home your probably OK.
Have fun with the new boat and good luck with the trailer,
Victor