I used to have a doc with about 30 revised spells in it, which I made a couple years ago. I have since incorporated all the changes into Project Phoenix and I can't find it anymore, but I can give you a list of major changes I made in PP:
"Animal buffs": Duration increased to 10 minutes/level, and they affect modifiers instead of the base abilities (for example, cat's grace grants a +4 modifier to all Dex-based checks, instead of a +4 bonus to Dex).
Antimagic Field: All spells/effects require a caster level check to be suppressed. Permanent magic items (magic weapons/armor) can't be suppressed, though any extra abilities can.
Darkness: Level adjusted, and the spell is actual darkness, not "shadowy illumination". Darkvision grants limited sight in the darkness.
Disjunction: Spell is treated as dispel with no caster level cap; grants additional effects for targeted dispel; doesn't affect artifacts.
Flesh to Stone: Does progressive Dex damage over 3 rounds; when the victim reaches 0 Dex (or on the 3rd round regardless), he turns completely to stone.
Gate: Cut the calling function – it simply serves as a two-way transport between planes.
Heal: Does only one of the following: restores ability damage, heals hit point damage, or heals conditions (dazzled, blinded, etc.).
Polar Ray: Added a slow effect on a failed save.
Polymorph, et al.: Limited by CR/ECL, not HD.
Raise dead, resurrection, and true res: Boosted a level to keep pace with the SoD spells.
Rope Trick: Duration was reduced to 10 minutes/level, the space is stated as extradimensional (not nondimensional) and can hold up to 8 Medium creatures or their equivalent (not 8 creatures of any size).
Save or die spells: Drop the target to dying (-1d4, 1d6, 1d8, or 1d10 depending on spell level, and it can't recover on its own) on a failed save.
Scorching Ray: Damage/ray is halved, but number of rays (and rate of gain) is increased. Damage was lowered because the original version grants 12d6 total damage at 11th level with no save. This version grants 8d6 at 12th with no save.
Summon Monster/Nature's Ally: Revamped summoning lists, duration changed to 1 minute/level.
True Seeing: Subject can see through illusions only if their caster level is lower than the TS caster level; range is reduced to 60 ft.
Weird: Changed targets to "1 living creature/level in a 30-ft. radius", dropped extra damage, changed Strength damage to Wisdom damage.
Miracle, wish: Bumped up to 10th level (I have rules for real 10th+ level spells).