There's gonna be marginal differences between longevity in the two motors. My case in point, and gotta use a green motor as example since it's what I have the most experience with
. I have the JD 4045 motor in about half my fleet of rental equipment with two different horsepower ratings. One is 45hp and the other is 60ish hp. The difference between the two set up's is a 60 hp unit has a larger turbo, more fuel through the injectors, ect..... Both set up's on the engine last about the same. It all depends on how the motor is
maintained
I wouldn't be concerned with which engine has the more boost causing stress. I would have only one concern between the two engines since they are the same HP rating. And that is
Which one gets the better fuel economy