1) +2 wells reset 24+ hours after you leave zone after using well.
2) Shops, stores and guilds reset @ midnight.
3) Suspect zones and dungeons reset at midnight.If you want to modify time until respawn you can use Datafiles option of Grayface patch and easily modify 2devents and mapstats files once you've pulled copies from appropriate lod files.
Unfortunately modifications must be made before you enter zone or dungeon.