I'm probably going to get flamed but i still miss levitation
Seriously though i think 'Cure Disease' should be available as a spell once your at adept/expert level Restoration. Wards are a nice idea and look great but when experimenting with them last night i was pretty disapointed, their cost vs effectiveness needs rebalencing.
You should be able to lift and throw npc's with telekinesis, force unleashed style.
Destruction runes are a little underpowered at higher levels, they should maybe include expert level rune spells for sale, or make rune master a tiered perk with more damage per point. Destruction damage from all spells should be tied to your overall destruction skill. Would have also liked a spell to be able to temporarily charge my melee weapon with fire/frost/shock similar to elemental fury.
Conjuration should maybe have a 'druidic' side to its perk tree, for druid/ranger types to call bears/wolves/spriggans/sabrecats into combat. Overall conjuration spells look pretty evil so my 'good' characters have to do without.
I feel they should definitely have included levitation this time around since so many people missed it in oblivion. They could make it work even with the main cities being in different cells they could just make it so you can only levitate out in the wild and not in cities.