And a sufficiently good chess player could have defeated Deep Blue, and even a modern computer system built on the same budget. The fact that no human alive can do it, and it may exceed the limits of unassisted human cognition notwithstanding.
.. and we're not talking about anything as complicated as chess when we speak of Palladium RPG. .. but I agree with your statements about chess.
One of the features of a good game system that a strong GM will find hard to cure is player independence. If I get choices, I prefer not to have to run them by the GM first, which also saves the GM time. This is a weakness of universal systems, yes, but also games like Rifts and D&D which don't have that excuse, where GMs ban stuff because it's simply overpowered.
The GM of any game system should as a matter of campaign development and ongoing maintenance keep a copy of every character sheet and audit every character before play begins in the game and at every level of experience thereafter. Lack of GM intervention in this way is one of the root causes of being a bad GM.
Now this said, if you have the right group and the GM has taken the time to go through all of the books and clearly advised what is and what is not allowed ahead of time, this becomes less of a requirement. It's the responsibility of a game company to make money, not publish balanced game systems. (Which makes those that do publish balanced systems all the more notable.)
In other cases, it's simply a matter that a bad system makes more work for the GM. If a good GM can make a bad system work, shouldn't they be able to make a good system great?
There are unbalanced systems.
There are balanced systems.
There are ways to unbalance balanced systems
There are ways to balance unbalanced systems.
Game companies are at fault for all of these previous four things.
There are those who are novice GMs
There are those who are experienced GMs
There are those who are expert GMs
Any of these will have their preferences of system and being any one of these is not dependent on their system of choice. If you have a great GM with a bad system, it will still be a great game.
YMMV.