Does the noise happen when you are deaccelerating while still in gear?
Does it sound like a sort of grinding sound?
I just got my clutch replaced and this sound still persists. I think it's the Intake
Sounds like grinding metal when you engine brake, and pressing in the clutch or giving it gas makes it go away.
I doubt that it's your TO bearing, cause mine got replaced with the clutch, and it still makes this noise.