I'm not sure how short or wide your kayak is, but the Allagash Waterway in Maine has restrictions as to length-to-wodth ratios that you should check out. If your kayak is too short, you either need another boat or you need to think of another destination. One of the through paddlers a few years ago nearly had her trip stopped short because of this issue.
2-3 Canoe/Kayak Trailer
First Need Purifier