MC you got me second guessing myself now! I just did some quick research on polyester filler characteristics and it being applied over both esters and epoxies. I guess the amine blush from epoxy can lead to problems with applying ester's over top if the surface is not prepped appropriately. At first I thought that may be why I had some issues with the poly filler the intial go around, but there is only epoxy on the repair on the starboard side and the first batch of poly filler had problems everywhere. But this is good info to know for the future.
Now, the big concern that you got me thinking about is water absorbtion of the poly filler which I believe can be attributed to its talc content. A quick search on the evercoat site got me to the tech sheet for rage gold which claims no blistering, wrinkling or softening after 24 hour immersion in water. That makes me feel better as this boat will never be in the water for that long of a period of time. Also, the paint I plan to use is succeptible to blistering after long term exposure to water if used below the waterline (ppg single stage acryclic urethane) which I decided to ignore since again this thing will never be sitting in the water for that long. At the very most it might sit on shore over night.
I initially figured the poly filler wouldn't be a big deal since I am only using a thin coat of it for the final fairing and it will be sealed with primer and paint, plus I just love it because it sands so easy! All of the discussions I have found online say do not let bondo anywhere near a boat, but I can't find any technical information to back that up in relation to what I am doing. I did find a marine filler by evercoat that is polyester based and they state to seal it with gelcoat or a marine grade paint if used below the waterline. I think I am going to move forward with the approach I have and leave it up for discussion if anyone feels the need to chime in with some info.