But I think the skill system in the original version of D:OS was much, much better than in the EE.
I definitely agree with you. I'd rather be able to access all the available skills in my selected "class" or preferred "magic school" when mastering it than have some sort of irrationally imposed skill cap.
If some sort of "balance" is truly required for whatever reason, then it would be preferable to balance it in other ways--cool downs, cost, difficulty of acquisition, limiting the number of "schools" you can master, etc.
I, for one, enjoy achieving godhood from the beginnings of a humble whelp. It's a sense of continual achievement, accomplishment and growth. Limiting that spoils a fair bit of fun.