’00 Chev Tracker and ProStart CT-3300 ?’s

I'm trying to install a ProStart CT-3300 in my GF's 2000 Chevrolet Tracker (auto).  There is no alarm but it is equipped with keyless entry.  There was an older unit previously installed and all the neccessary wiring was already available, luckily.  I installed all the new components in place of the old ones and double checked the wiring to ensure everything was correct.  When it came time to program the transmitter I ran into a few problems. I followed the steps as listed.  The parking lights came on after holding the hood pin-switch etc. but on the 3rd step they did not flash after pressing the lock button twice.  I did a search and I did try holding the button down and trying numerous times etc. to no avail.  In searching the site I also came across a thread where someone had a faulty reciever (antenna) .  Is this a common occurence? 

There are a few things, regarding the install, that I'm not quite sure on:  On the 6-Pin Main Ignition Harness I did not use the Green 5th Relay Output wire as I don't think it's required.  Is this correct?  Also for the 12-Pin Accessories Harness the only wires I used were the Brown and Green wires (Lock/Unlock output) connected to the Pink, Pink/Black (lock/unlock) wires of the vehicle.  I did not use any of the other accessories wires.  Is this proper or am I missing something.  Any help or guidance would be greatly appreciated!