There is only one GPIF Tool and it can be used to generate the GPIF microcode for both EZ-USB FX2 and EZ-USB FX. Make sure that you select the correct target processor when starting a new project. This is how the GPIF Tool instantiates the appropriate gpif.c file.
The older GPIF Tool has been replaced with a new tool called the GPIF Designer. The new tool allows waveform design using a graphical interface. The GPIF Designer also supports both the FX and FX2 devices.