It would be all the mounts, there is no isolation between the engine/gear box/transfer so you would treat it as a lump mass.
The primary job of the engine mounts (other than attaching the engine to the chassis) is to minimise/control vibration transfer to the chassis, as far as i was a aware the primary function of the flywheel is to 'iron out' the pulses of power you get from an IC engine, however i THINK the engine inertia is also used to absorb vibrations from the suspension/road conditions.
Modern car manufacturers go to great lengths to tune their engine mounts, i came accross all kinds of high-tech desigins when i was researching it at the time.
It might be worth sitting with the car in neutral and slowly going up throught the rev range to see what rpm you are getting resonance (high vibrations) and even trying to see what the vibration mode is (up and down, side to side, back and forth, (x,y,z) or role, pitch or yaw). Most likely it will be up and down, or pitch (front of engine/gb assembly goes up at the same time as back goes down). If you can hold the rpm at the point it vibrates you might be able to place you hand at different points on the chassis and narrow it to a particular mount or pair of mounts that are the ones not doing their job and transfering all the vibration to the chassis!



) I manufactured a 3" straight through that if I must say so myself  is about as free flowing you can get at the dump of a td5 turbo...front mount intercooler was doing its job but didn't have any before and after temps of the intercooler at that stage...
				
				
				
				
					
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