Spector, 64, pleaded innocent to the murder count and remains free on $1 million bail until his court date, E! Online said Friday.
Spector says the 40-year-old Clarkson "kissed the gun" in front of him inside his suburban Los Angeles mansion Feb. 3, 2003.
But an officer at the scene testified to a grand jury that after Spector was handcuffed, he said, "What's wrong with you guys? What are you doing? I didn't mean to shoot her. It was an accident."
Clarkson's mother, Donna Clarkson, filed a lawsuit earlier this month -- on the two-year anniversary of her daughter's demise -- charging Spector with wrongful death.