I have the INI file loaded and FS2002/FS2004 selected under 'game protocol'. I have version 1.6 of your program and have also downloaded the FS2004.ini file (which did not come with the installation and is very difficult to find - only by doing a Google search did I find a link to it in the forum, but it's nowhere on the main website). The webcam picks up my face and tracks it and I see values in the top left and under raw input ticking away merrily.
With the program running solo it works just fine. I have just installed your apparently excellent program and thought I had everything set up.