See it never bothered me that every time Spock was having one of his Vulcan angst moments we got the same very poignant and tense music. But that's because I believed in Spock the character and his story.
Yeah I don't know why the Chakotay music bothers me.
It's just...you'll see him doing something "Native American" and you just KNOW the music is coming...and it does.
Not sure why it bugs me.