I do believe that break-in does happen. However,
1. I think the general sound characteristic of a component will be apparent when you first hear it. I do not believe that a new component will sound like a clock radio when first used then 500 hours later it sounds amazing
2. I think break-in smooths out some general rough edges of its sound
3. I believe our ears break-in as well. Our brains can distinguish the smallest of sound changes. I compare it to renting an unfamiliar car for a week on vacation. After a couple of days, you begin to feel normal with the differences compared to your regular car.
4. Our ears change as well. Some days (very few)I can't listen to anything. My system sounds terrible. Most of the time, I love how my system sounds.
I think break-in is a combination of many things.