cpurvis, I just joined the forum today, and was reading about this vibration problem. I have a ZT HD 60, and this thread caught my attention. After reading your post, I am pretty sure that you are on the right track. I worked in the vibration field for 21 years, and learned a few rules of thumb about causes of vibration.. As you pointed out, the deck has its own unique resonant frequency. For whatever reason, the 52" deck has that resonance, and it is inside the machine operating range. That is to say. as the mower ramps up from idle to full speed, at some machine speed the resonance is excited and the vibration starts.
The decks on other machines have a unique resonant frequency as well. Those frequencies are well above the operating range of the mower. Therefore, the deck does not vibrate. I make an assumption here that the operating speed for the 52" mowers is roughly 3600 RPM. This would mean that the deck vibrates because the resonance is right on top of the 3600 RPM (max speed).
A detail that must be respected about vibration is that it can get complex. If you take the 52" deck (alone) and set it on a work bench, the resonance will be unique for that part. As you add components (spindles, pulleys, etc), the resonance moves around because the resonance of each component adds to or subtracts from the original resonance of that deck system. What I am saying here is that the composition of all of the parts attached to the deck affects the resonance. I know I am using the word resonance a lot, but please bear with me.
cpurvis, your idea is on the correct course, but I see two possible "gotchas". 1) As you pointed out, the magnets attached to your weights may not be strong enough. When dampening a system the dampening weight needs to be rigidly attached to have the maximum impact, and 2) You may not have enough weight to resolve the vibration.
I know that I have babbled long enough, so let me cut to the chase. Please remember that I have no data from these components so I am just sharing information in a limited fashion based on my life experiences. If I was trying to solve this, the first thing that I would think about is how to stiffen the deck system.
How do you do that? There are a couple of ways. The first is to make the metal in the deck thicker. This would add rigidity to the structure, and, therefore, suppress the vibration. This is not likely going to be what Gravely does because metal costs money, and they are in the business to keep as much of that as they can.
Another way to raise the resonant frequency is to add rigidity by using a method that can be field implemented. This is the solution I would try to follow first because it can be done in a practical fashion. I would take a length of strap metal like you can buy at building supply stores. For a 52" deck I would suggest maybe 30 to 40 inches in length. I do not know how the deck is constructed on top so you may have to alter the length. Longer is better. You can also add rigidity by using thicker metal. For example, instead of a 1/4" strap maybe try a 1/2" strap. Along the length of the strap drill a hole for a 1/4" bolt every six to eight inches. Drill the holes through the deck and the strap. In each hole place a 1'4" bolt. This will bond the strap to the deck very tightly. Place the bolt heads on the bottom side of the deck to minimize intrusion into the blade area. The strap needs to be on a top flat surface of the deck. Preferably toward the center.
You will have to decide if you want the holes in your deck. The strap will be on top. If you wish to remove it you can do so, and leave the bolts in place.
This is a theoretical solution. The philosophy is the same for any lawn mower. It is just physics. You may have to get creative in your own way. If anyone implements this, please let us know the results. If it does not work, I may have to change my user name.