I think you might be misreading the lesson of the dread necromancer, beguiler, and warmage. I don't assume that WotC felt that access to too many spells was too powerful. Rather, my assumption is that they found that players liked having spontaneous casters. They are quite a bit easier to run.
As far as the saving throws, the big advancement of 3e (yes, I consider it an advancement) is that you no longer end up with a class that dominates the others with respect to saves without really paying for it. Fighter saves in 1e/2e got ridiculously good, no sign of a weakness. Everyone has at least one strong save, and nearly all character classes have at least one weak one.
I believe you are partly wrong on the 1st point.
The lesson from the spontaneous caster wasn't JUST that spontaneous casters are popular (the sorceror could already mimic the spells of the those classes) but the fact that you can better balance a class by limiting its options.
I consider the spontaneous casters as what the 3E casters should've been to begin with. The game really works better if you get rid of the generalist mage and replace with one of the spontaneous casters.
re: Saves
All classes got better saves in 1e/2e. Nobody had such a weak and obvious gap between their good and bad saves that you could target IMO.