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Clutch pedal to the floor is 'disengaged'?
Or............opposite?
Input shaft can only be disconnected from the drive shaft RPMs when in neutral, when in gear(clutch pedal in or out) the input shaft will always spin at a gear ratio RPM to drive shaft RPM.
Pilot bearing allows the flywheel and input shaft to spin at different speeds.
When clutch pedal is up then pilot bearing is not being used, in Neutral or in gear, flywheel RPMs and input shaft RPMs are the same, matched.
And when clutch pedal is up Throwout bearing is also not being used.
When clutch pedal is down Throwout bearing is used, and if flywheel and input shaft RPMs are now different, Pilot bearing needs to be used.
If you were to drive down a slight grade, in 1st and at idle RPMs, then push the clutch pedal in, the throwout bearing would be used but if engine RPM and speed remained the same then pilot bearing wouldn't be used, matching RPMs.
If you got the noise now it would be Throwout bearing.
Then if you applied the brakes, clutch pedal in and still in 1st, the input shaft RPMs would drop with drive line speed, if Pilot bearing was the problem then noise would start to be heard, and get louder at a full stop.