It's funny, I'd say the real reason that I've not used these skills very often is because few characters seem to have them.
For instance, I've a Living Greyhawk character who has been asked for innuendo rolls on several occasions (too bad he doesn't have the skill). Also, no PC I've ever adventured with has had Read Lips but I've been in several adventures when I've used Listen rolls to try to do what Read Lips would do much better.
I've written a couple of scenarios which called for balance checks, but have only played in one which required it. (All of them were made untrained).