The two trails diverge between Thousand Island Lake and Red’s Meadow. I think the PCT takes a shorter, more direct route to Red’s Meadow via Agnew Meadows, with less elevation gain and loss. I think it stays fairly close to the river between Agnew and Red’s, so the final few miles to Red’s are probably more pleasant than that hot, dusty final descent to Red’s on the JMT. But that said, I really love the JMT between Thousand Island and Shadow Lake. I’ve hiked that section countless times, but I still wouldn’t want to miss the views of Ritter and Banner reflected in Garnet Lake or the view of Ritter and Banner from the pass in between Garnet Lake and the Ediza/Shadow Lake basin, or the experience of lying in the meadow by the creek that flows between Ediza Lake into Shadow Lake, looking up at the mountains towering around you, so I’d probably choose to hike the JMT section again … and again … and again … and again … But either way, you really can’t go wrong! Wish I was there now!!
Kanga