I should think that you could find someone else repowering who is willing to almost give you an Atomic 4. How much is the person asking for it? Personally, I wouldn't hesitate to repower with one if I had bought a boat sans engine and was trying to get on the water on the very cheap. You certainly won't lack for power, even in a 32 footer. Parts availability from Moyer is good and their prices are fair.
The boat market is interesting. Re-powering with an Atomic 4 will definitely affect resale. People pay more for a diesel. Sometimes twice as much if it is newer. However, people won't pay much more if the boat is badly underpowered...so don't put a 1 cyl or even a very small 2 cyl in if you are trying either maximize value or build something to keep for the long haul. When I bought my boat I shopped around and found that diesel powered 9.2A prices ranged from $15,000 for a 12hp 1 cyl to nearly $30,000 for boat recently repowered 3 cyl. Older models with A4's were as low as $10,0000 to give you some idea of the impact. I ended up in the middle with a boat with its original 2 cyl Yanmar 14-15hp diesel. Some would probably even repower my boat at this point, so I am surprised how much value it adds to even have an older, but still sound, diesel on board. From that perspective, a used diesel might maximize the boats value, if you can find one, but I would probably look for 20+hp for that boat.
Another plus for the Atomic 4 is that a do-it yourself rebuild of an atomic 4 will likely be more forgiving as high compression diesels are tougher to rebuild for an amateur, from what I can glean. Moyer has an electronic ignition update that make the A4 more dependable too. I suggest you check their site or call them with details on the specific engine. There were a few versions of the A4, from what I recall, and they can tell you the pluses and minuses of that particular year.
Be forewarned...this is NOT and inexpensive hobby. It is more of an addiction. For years the cheapest part for me was my boat (prior to this one). I paid a $1000 for the boat but $1500 a year for winter storage.