Bill,
Brian Nystrom is correct. The traditional way was to drill holes through the gunwale very near the top edge (kept the rigging higher Aabove the waterline to help keep the noise down from rigging gurgling in the water if submerged) and angled downward to exit the inside of the gunwale an inch or inch and a half down to keep any knot that was used away from the deck skin.
I recently finished a modern design race boat using traditional SOF techniques. The foredeck rigging was done as I described but using 1/4" shock cord, but the aft deck riggin was installed by sewing loops of strapping to the skin aft of the cockpit before coating it, and running the deck rigging through the loops. See photo attached ( if I do it right!!)The deck is so low aft that I didn't want to have the rigging dragging in the water as the boat heeled and put the gunwales under. No fear of noise scaring a seal but drag.

: Ok another one. Anyone got any ideas on how to attach the deck rigging on a
: skin on frame kayak? (yeah I know, go look at Tom's site ).

: Bill H.