Dakukunshu (the Overlord) killed almost every single ninja in the Canon Six, excluding a lucky Kai, who lost his right eye and ended up living with the truth that he had no real friends anymore, besides the paradoxical clones that were promptly built.
Lloyd - Neck gashed open.
Jay - Skull crushed
Nya - Pulverized, unknown, and corpse unrecognizable
Zane - Blown up, rebuilt by Kai.
Cole - All bones in body destroyed.