Don't get me wrong -- I try to avoid it as much as possible, but yes, whenever I do the dreaded Reset Everything routine, my keyboard shortcuts are also mangled beyond recognition.
But as you can see, it's something inside InDesign itself that gets it wrong. It seems unrelated to the actual action id's (other than that they point to "a script").
What I meant is it should be perfectly okay to save a copy of your working KB set somewhere else, and restore that one when you find your preferences have messed it up.