Pig9r,
Do you have the TuneBoy cable drivers installed correctly for TuneBoy/TuneECU?
If so, then you do not need the FTDI drivers. The TuneBoy cable will work with TuneECU with the TuneBoy drivers - both the early and later versions of the TuneBoy cables.
Both of mine (early and late) also work with the ftdi drivers from the FTDI site. But you may have the laptop trying to use the wrong drivers. You can force it to use the correct drivers if required.
If you are using the cheaper FTDI VAG cable, then you need the drivers from the FTDI site, not the ones that come with the cable.