In Eye Of The Fox, Kira is both a jerk and a half-demon, but he is clearly not evil as he wouldn't have botherered to look after his brother or burn Konoha to the ground when he had the chance.
In the Tamers Forever Series by Daneel Rush it is made very clear that despite his violent tendencies Chaos is NOT evil
Also, during the Final Battle with Fluttershy's Superpowered Evil Side, Princess Gaia/Nightmare Whisper, Fluttercruel forces herself out and is revealed to be a second Element of Kindness! The irony of this does not escape her.
Clouded Sky has the protagonist Tobias Talltree, who is a "darkling", a Pokémon trainer who received a dark-type Pokémon (in his case, a Murkrow) as his starter. Despite him getting much contempt from various people he meets for this, he's still a perfectly kind, noble person. All of the other darklings shown throughout the story (namely Alex and all of the people who reside in the Dark Temple) are generally shown as being nice, friendly people despite their affinity with the dark type.
Celestia: "Dark magic, or rather, evil magic. In her normal frame of mind, Luna would detest the implication that her night was in any way associated with evil."
