No Marlin it doesnt matter if the clutch is pushed in or not. I should have also mentioned that its not a constant noise, it comes and goes. I heard it once then a second time with a short pause the first time and as i was coming home when i began to come to the stop sign i heard it again and right after that it wouldnt idle.
But to answer your question directly, no it doesnt matter if the clutch is pressed in or out. Although both times i heard the noise the clutch was not pushed in.