Rob, 
When you tested the Si transducer was this with or without the AS-Si-DB-Y cable connected? 
Did it also do this while sitting still? 
The problem still sounds like it is with the inside-the-hull transducer though.  Usually the work better when there is water in the hull, so maybe a break in the cable and water getting in and shorting out something?  I would replace the transducer and see if that helps.  Just be sure and test the location before mixing any epoxy.