Dry or lubricated absolutely makes a difference. It isn't the torque that engineers care about in nuts, bolts, or spark plugs, but the tension. It is the tension that holds the parts together, that holds the seals tight, and that results in failures in use, or from over tightening. Torque only causes failures if the threads are prevented from turning, by rust, improper threads, or other seizure.
But measuring tension is very difficult, and measuring torque is relatively easy. There are commercial tables where for a given grade of bolt, size and thread pitch, typical industry torque ranges are listed. They have separate columns for dry and lubricated, with lubricated numbers being lower.
If you think about it, you have two sources of resistance to the torque applied by the wrench. The first one is the pitch of the thread interacting with the tension in the bolt. It is similar to the work of pushing a car up a ramp. Except the result is increasing the stretch and tension in the fastener. The other is the friction that is generated between the thread surfaces under the tension of the fastener. These two factors add to generate the fastener torque. If you reduce this friction contribution with a lubricant, then to have the same total torque, you must be generating more torque from the interaction of tension and the pitch of the thread.
But the key item for the 1082 MR1 is that the Yamaha manual specifies anti seize. So if they wrote the manual correctly, the torque they provide should be for lubricated threads, and would be too loose if used on a dry thread.