The 3n1 will provide 2D, SS, and DS sonar, but will loose bottom at speed due to mounting location hanging off the back of the transom (as will most transducers). But, it should read bottom at idle speeds. There a several folks much more knowledgeable than me that will come along shortly with better ideas, but I would first confirm source settings. The Lowrance unit should automatically identify the 3n1, but you should confirm the source of your screen/view or overlay - Settings > Network > Data Sources... Scroll down to Sonar and confirm the correct unit and transducer is selected for Water Temp and Depth.
For 2. - most manufacturers (or dealers I guess in some cases) install a thru-hull, which is usually required for depth readings at speed. You can typically have one installed if not already present, and assuming you are running somewhat current Lowrance units (Carbon, Live) they have two separate ports for sonar so no issues adding a 2nd transducer. This is actually the most common setup, a Thru-Hull or other 2D (like Airmar) on CH1 and a Structure Transducer like the LSS, 3DSS, or 3n1 or Totalscan on CH2. Honestly it sounds like your dealer just doesn't want to work in the bilge or run cabling, which is a bit suspect imo. Unless there is some reason not to run an additional 2D transducer alongside a 3n1 (so you would essentially have two 2D signals available) that I am not aware of...
For 3. - Bunch of videos on YT, but Forum member Colibri has a great resource site and is likely what is being referred to -
https://teamcolibri.blogspot.com/202...nce-guide.html