Hi Liz
Welcome to RM forum. Matt was being pretty modest in promoting ReefMaster as a tool for you. I'd like to comment on RM as a user. I have been mapping coastlines for 15 years here in New Zealand and used many software tools in that time. RM is now my main tool as the go between the sounder and ArcGIS work. One thing Reefmaster does for you is it will very quickly convert line depth data into extrapolated 100% coverage, allowing you to generate contour lines of your choice. It integrates this process with a shoreline, which you can bring in to RM via a shapefile from your GIS. It gets better, once you get this far you can export from RM a GIS compatible 'grid' file. Once you have this in your GIS the world is your oyster because you can go straight to 3D work, make hillshade, contour layers etc. One other function in RM which is very useful is you can do your tide level adjustment easily, so that if you need to all the mapping layers and data you produce are tide adjusted. Assuming here you are working in salty water. So Liz you won't regret purchasing RM it is a great tool for integration with ArcGIS.
Liz you mentioned mapping obstructions etc. From what you have said it seems you are heading towards making side scan layers as well, which is now possible on most of the Lowrance and Humminbird machines. RM's capability to work with SS data is also excellent. There is some good expertise on working with SS checking in frequently with this forum, so suggest you start a thread at some point about your project and ask the questions as they arise.
Have fun.............................................................