It's possible. Harmonics are funny, they exist in a certain engine at a certain RPM, and the next one off the line will be totally different. If the harmonic just happens to affect a certain engine part with a resonant frequency, then it can weaken it over time.
That's how fat lady opera singers can break champagne flutes.
I wouldn't disagree with their position on the replacement motor, but they should have stepped up on the original repair. One of the best tools you have to fight shit like that is the internet.
My 2000 Excursion (may it rest in pieces ) had a V-10, it was 6,000 miles out of warranty when it spit a spark plug right out of the aluminum head. Ford was playing stupid, and I found out through truck owner message boards that it was happening to other people.
When confronted with that fact they agreed to replace both heads free of charge. Prolly would have been around $4K to fix it.
BTW, if you ever plan on running into an immoveable object, an Excursion is the ticket.
[img]http://www.***boat.com/image_center/data/500/109Ouch_-med.jpg[/img]