2000 Honda Civic 791XV viper car alarm

I'm sure if you had a picture, it would make perfect sense.  I know english isn't your first language, but I'm not sure how to explain it any easier.  After you cut the starter wire, you'll have 2 ends.  Connect the purple to one end (the one that leads towards the starter motor), and connect the green to the other end (the end that leads towards where you put the key in the ignition).

ok, make sense now, so after I cut it, do I need to hook both ends back?

for the neutral safety wire, where do I ground that to? i read the wiring diagram and it say BLACK/ blue wire, but it didn't say where, I been looking at the shifter, but don't see any BLACK/ blue wire.

yes