You can get close by adjusting the new mounts by moving the nuts to the same position as on the old mounts. But because the softness will be different between new and old mounts there will still be a difference, it will just be smaller. Mounts cannot be refurbished, only replaced and you're best to use the Yanmar mounts as opposed to aftermarket ones. Re-alignment isn't hard just fiddly to do and usually in a fairly tight space.
Living aboard in Victoria Harbour