Re: which battery to hook to?
I run my bow trolling motor fishfinder off the trolling motor deep-cycle for convience and ease of wiring. My console finder goes to the starting battery.
I do get some noise on my old 400TX when the trolling motor is running. The trolling motor is a MG wireless, which has PWM. It is not an "ALL" case but the digital control trolling motors do tend to be more electrical noise problematic. Running the same transducer and unit on a 5 speed transom mount produced no noise.
HB tech support will recommend seperating the power between them as the first course of action, along with seperating the wire running paths, as much as possible. They also have unit power cables with an integrated choke, and a heavy duty choke (coil) to put on the power side of the trolling motor. Some transducers do not have good shielding either.