I openly admit that feeling your way through 3D Coat is probably futile.
To upload an stl... theres a couple of ways... most typical way is when you start the app you get a dialog with a bunch of selections. I suggest selecting Surface Mode (at least to start with) which will bring up another dialog. Select the folder and browse to your stl or obj file. The thing then is shown as a PREVIEW it is not in the file yet. You can move it around with the gizmo before it is actually merged into the file. After you have the thing as you want it, you select the Apply button. The object is then actually in your file... but there is still a preview on top of it because you are still in Merge mode. Select any tool on the left and it will change the mode and you'll see your thing.
Note the browser on the right. Your thing is in the browser and it has to be selected before any of the tools will work on it. The same operation can be done by selecting the Merge tool on the left. To browse to your thing file select "Select mesh" in the Merge tool box.
To FIX a mesh (actually a complete remap) you need to go from surface mode to voxel. Note the "S" next to the name of your thing in the browser on the right. Click on it to switch to voxels. Make it a big number to get good resolution. Then Right click on the label of your thing in the browser and select Export.
We are currently doing a series of segments on 3d Coat... probably will go on and on... I keep learning so much about it! IMO 3D-Coat is the very best all around tool for us right now!