If a flywheel is unbalanced, it may vibrate the whole powertrain even while the clutch is engaged. If you recently replaced the clutch, the flywheel, or pressure plate, make sure you torqued all bolts to spec and applied thread locker if it was called for in the factory service manual. A flywheel that comes loose or disintegrates while driving is incredibly dangerous, as there is considerable amount of energy stored in the flywheel.