The silent bloc bushes inner tube should protrude from the swing arm by about 2mm and contact the frame when you do the swing arm spindle nut up so you should have 2mm clearance between the swing arm and the frame it might be a bit more than that
There is no clearance adjustment designed into the system
The silent blocs keep the swing arm from contacting the frame as they dont allow much horizontal movement if any
The spindle should be tightened when the suspension is partially compressed to minimize the stress on the silent blocs do you have a manual? As that will explain the procedure
Sorry don't know the torque fir the spindle but as tight as youvdare should do it