I wish rather than having to break down a bridge/incline, that you could pay a 30k - 50k Bells fee to relocate them just like you can do with houses. I also wish you could build a bridge on a second level without their needing to be water below. Or build an incline that goes upward and can also be used as an arch for the lower level that you can walk underneath, if that makes any sense.
I'm glad that we aren't stuck with permanent rocks like in NL, but it is annoying that we can't choose where to move them. I'm now going through the process of putting a custom design all over my island in all of the spots that I don't want rocks to spawn. And since I don't TT, this is going to be a (probably) over a week long odyssey.