The fact that spells are badly organised currently is no reason to not make a good change like this to prepare for the future. Spells ARE going to be reorganised, so are skills. Skills/spells are going through quite a big change atm, not just trainers.
Also, the fact that to be good at warrior/hunter/thief you need the 1 uber skill that class has to offer is ridiculous. Hence why we're going to make the classes more unique, and not have them rely on one skill/spell.
As Virisin said, perhaps we could list skills/spells here which are somehow..not up to par for the tier/level?
I'll state a few.
Bow / Crossbow - Damage on bow/crossbow should be worked up a bit.
Detect Magic - Magic items show up when using an identify scroll on an object.
Flank - not finished yet
Forage - RP-like skill..Could it be removed, and say, let it be learnt with an item/mini RP quest or something?
Hamstring - not finished yet
Mana Blast - Takes up way too much mana (1000+) for a 1-2% damage off hp off a T4 level 60 mob. Damage doesn't show on prompt too, so no way to estimate, and some mobs are even immune to it.
Nightmare - Spell doesn't follow helpfile at all, mob doesn't flee. Some damage is dealt though, but there seems to be no damage message at all. Goes like this
You power up a nightmare attack!, and hp is deducted from the enemy. No multiplier shown, but damage is below average (compared to chill touch), plus the spell can only be cast out of combat.
Pick Lock - I don't like this skill, though I guess it should be in for RP reasons, since most doors are unpickable, and those that are pickable, the key is usually in the same room on a guard. I'd like it if it could be upgraded to the same function as knock does, so it could save a skill/spell slot.
Psi Panic - It has a high failure rate, a successful cast either results in nothing, the mob leering at you, or the mob fleeing. While it can be used in combat, after the 8th-or 9th try and you get your opponent to flee, you're probably almost dead. Good thing is that it can be cast on shopkeepers or peaceful rooms, so you can chase that weaponsmith out of Olde Yorke or the Healer out of Recall.
Weaken - Redundant, since chill touch does damage AND reduce strength, AND is a T1L2 spell AND is affected by mind ice.
I'll update this post as more skills/spells are listed.