While speculation has been raging over the future of head coach Antonio Conte, Emenalo has made a decision to bring his 10-year association with the club to an end.
Emenalo, one of owner Roman Abramovich's most trusted advisors, joined Chelsea 10 years ago and was crucial to the club's scouting success during that time.
'This has been a very hard decision to make, but one I believe is right for both myself and my family, and the club, ' Emenalo said in a statement posted on Chelsea's official club website.
The latest Premier League triumph came under current boss Conte in his first season in English football.
The former Nigeria worldwide first joined "The Blues" as opposition scout under manager Avram Grant and rose to become technical director.
It was initially believed by many that Emenalo wasn't getting on with Conte, and footage of the Italian leaving Stamford Bridge in a joyous frenzy after beating Manchester United yesterday seemed to fuel that.
Chelsea's transfer policy was a disruptive issue all summer, with a long list of deals falling through and manager Antonio Conte making his unhappiness public.
The Nigerian global began working in Chelsea's scouting and coaching departments and was promoted to technical director in 2011.
However, he has often been seen by some as at fault for transfer flops and the increasing amount of young players sent away on loan.