The league said the quarterback and his wife fully cooperated in the seven-month investigation, providing interviews and access to all records sought by investigators. Manning vehemently denied the allegations when they were made late in the season.
Manning retired from the NFL a month after Denver's 24-10 win over Carolina in Super Bowl 50.
The NFL is continuing its investigation into allegations made against other NFL players in the documentary, which the league said involves "different lines of inquiry and witnesses."