Start with the FS shortcut, if it loads in to vanilla then there is a problem with your install. Once you get into FS (big clue, it has a FS and starwar style frontscreen), navigate to the server page, then make sure only same version and same mod are checked along the bottom, then click refresh. Oh, and ensure you are on the top tab that says FS servers.
Use the search function on the forums, this question comes up way to often.
Bite my shiny metal Tie Fighter!

