General 2D sonar and LSS settings to get you started:
2D sonar - First, make sure you have the current software (1.1.39.44). Check your version at Menu, Menu, System, About. Recent updates have focused on enhancing sonar returns. Sonar Auto mode works very well. Keep the unit in 200 kHz. Under sonar settings, select Shallow Water (for our purposes this is water < 60 feet deep) and set scroll speed to normal. Also, under Installation select your appropriate transducer. Under Sonar Menu, I run Ping Speed at Max. Colorline I like at 85. For shallow water, especially around vegetation, I prefer color palette 1. For deep water or with lakes void of vegetation, I like palette 13. This was called bottom color tracking in the older units, helps separate fish from the bottom/cover, and also shows hard bottoms/shell beds better.
StructureScan - In typical freshwater depths (15-30 feet), your sidescan range will work best set at 2-3X the depth. 60-80 feet is where mine is most of the time. Range can be operated in either Auto or Manual – I prefer Manual. Of course, as you move deeper than 30 feet, increase your side scan range accordingly. With the LSS2, I always run mine in 455 kHz. I prefer contrast between 65-80, with less contrast in shallow water and greater contrast in deep water. I also like color palette 9 (blue).