Meh, removing limitation to fix this problem is like removing a machine from a car because it caused so much heat. The only failing in the old system like you just mentioned is that stats progressed normally regardless of that skills being a main skills or not, which mean being main skills would make your stats lower that it should be. Rather than removing limitation and stats, which is stupid, they could just make it stat progression from main skills is actually higher than those from non-main skills.Skyrim's levelling system was a massive improvement on Oblivion and Morrowind.
Skyrim did away with the old stats system that meant you had to level a bunch of minor skills to avoid having sucky stats. It got really stupid, counter-intuitive and metagamey
(e.g. if you picked a lot of strength skills as your major skills, then you'd end up with a very low strength character due to not levelling lots of minor STR-based skills)
Shame they can't just, you know, make it great/stable out of the box. That's just asking too much.
The system fundamentally broken, changing it is like you wish some modder would turn the combat into Souls-esque with full worked rolling.
EDIT: Then again, maybe I could understand why people loves the freedom in Skyrim where you can switch your playstyle at whim. I know I could because the world is so goddamned dull, lifeless, and boring that it doesn't worth a second visit, so they have to make due in one, and only playthrough.
No matter how much mod I installed, how great they sounds in the description, I could never, ever able to get into my Skyrim 2nd playthrough more than five minutes.