I still disagree that the system is "meaningless."
It's pretty obvious what it does, and that if you spend points in a particular skill you'll get better at it. You don't start the game off with 100 in every skill, and on my playthrough I only hit 100 in small guns.
If I metagame and/or am fully exploratory, then yeah, I'll have a lot of skill points. It's just the game rewarding a player for being thorough, it doesn't make the skill system meaningless.
You don't really get that much better though. Except for those few areas which are hardlocked to skill level (trap disarming, lock picking) there really isn't much of a difference between a 40 skill and a 70 skill.
Is there a difference between a 20 and a 100, yeah, sure definitely. Its not that huge though. And when you add to that how easy it is for any character to get all their skills high in the first place, I get confused as to why there is a skil system in the first place. It's not a bad thing to not have a skil system. So if you don't reaally want one, don't put one in.
By You, I mean Bethesda, of course.