What would you think of a utility that would do that job for the user?
I'm glad you like fpGUI so far. Unfortunately there is no way for me to make such a tool, because I simply wouldn't know what is relevant or irrelevant to each individual. Some would require the UI Designer, so not. Some would want DocView (help viewer) etc. So I'll rather leave that task up to the developers.
But to be honest. If you are only using fpGUI (not extending or developing it) You simply need to compile the framework and the tools you need. Then you shouldn't need to browse the fpGUI directory again, but simply write your own programs.
In contrast, Lazarus has a lot more directories than fpGUI. :-)