Been using the duct putty for a LONG time, on several kayaks. It works well and is one of the easiest methods to do, and does not screw up your transducer if you want to keep the transducer when you sell your kayak.
On the other hand, forget accurate temperature readings. Ever feel the "woosh" of hot air that comes out of the kayak when you open a hatch on a hot day? Kinda' like leaving a thermometer on the floor of your car with the windows rolled up and expecting an accurate temperature reading. The contact with the cool plastic hull does not have enough isolation from the warm/hot air inside the kayak, making any temperature reading unreliable.
I'm with Steve, when you go fishing, you go fishing. If you wait for what you believe is the "perfect" temperature you'll frequently be surprised by who caught what when...
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"I Brake for Halibut"
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