Like everything with boats there are pro''s and con''s with different routing. Having the drain go to a through-hull with seacock lets it be placed directly under the cockpit well for a short direct route, quick to drain and less likely to clog. Below the waterline discharges avoid topsides staining from water dribbling down. On the other hand they are one more hole in the boat that should be left open while away. If closed the cockpit can fill with water from rain or snow, which will eventually find its way below.
Since you already have the below waterline setup, I wouldn''t change. No need to loop the drain. That''s done for anti-siphoning, not a problem with cockpit drains. Keep the run short and direct, use really good hose, double clamp at fittings, and check it periodically. That includes opening and closing the seacocks to make sure they still work.