Trudat... You have the same system that I do. I'm running the SN95 Cable to allow for extra routing.
The way I have mine setup is that the "up" position puts the pedal an inch or so higher (toward the driver) than the brake petal. Clutch release starts an inch or so past the brake pedal. So I guess I have one to two inches of travel. I had to fine tune after the new install so I got two things:
Smooth shifting (meaning I got full clutch release) and no clutch slip.
If you have those two things, you're good.
What you may not be used to with that quadrant is that it is shaped for quick release. What that means is that pedal is going to be REALLY easy at the top and more firm at the bottom. You actually need two people to ensure correct release... you need somone to watch down below and hollar when clutch release begins because it's really difficult to tell from just pedal feel.
If all that is done and you're still not happy with pedal height, you need to probably order the pedal height adjustment kit from MM.
Hope this helps.