IIRC, & it's been a while...I removed the bracket from the vac. controlled mechanism & put a piece of vac. hose between #2 & 3 in pic 7. Then just zip tie it out of the way.
I think those lines had something to do with the small cannister over by the cruise control/ ABS module which is abandoned also.(not the ABS, but the small cannister) I put a piece of vac hose between the two ports on the cannister to keep things clean in case I ever want to go back to the NA setup.(not likely )

I have a diagram of the vac hose routing if you need it.

Gotta love the incredibly vague install instructions from Alpine.