-- Last Updated: Aug-29-13 11:11 AM EST --
Although I've not done the entire route I have paddled most of the Susq Water Trail and have generally found the sections north of Harrisburg to be better suited for kayak camping.
North of Harrisburg tends to have: more non-private islands/camp sites, more put-ins, less and smaller dams, and significantly less power boats.
You can also hire BMO to run a shuttle on the northern section that saves a ton of time and hassle vs the two car/second driver system.
I will confess a bias that I was a 15 year employee of BMO and one of the original island stewards for the upper section of the trail. I'm not saying that there aren't some nice sections on the lower trail, but the power boats and private land were always a turn-off for me.
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