Don't get me wrong, fs-uae is really great.
But you can't do configuration inside the gui atm. (Do you remember my question about this?) Therefore you can't use your PC as an Amiga media center with fs-uae where you can entirely skip the whole Linux stuff and boot directly into the emulator. You still need to edit configuration files. p-uae and e-uae have a mask where you can select Kickstart version and such without ever leaving the program, just like WinUAE.