The new skill system is really nasty for anyone, possibly except Rogues, Bards and Wizards (and Wizards only because they focus on Intelligence).
I have to say, it definitely helped me making my monk that jump, tumble, and balance are now all one skill (Acrobatics), and Spot and Listen are rolled into a single skill, too. I had to make a lot fewer hard choices in that case.
The new skills do love the rogue, though. Their points aren't really higher, but between Acrobatics, Stealth, and the new Disable additions, rogues can now spend 3 points where they originally would have had to spend 7! Wowzers.
I'm not sure casters get quite as much of a break, but at least Spellcraft and Concentration are the same skill now, so you don't have to choose between identifying a spell and managing to cast one.