I did the following and it works fine, I added my Command Line Tool to the Resource Folder of my project and did the following below:
set myPath to POSIX path of (path to resource "MyComandLineTool")
do shell script "cp " & quoted form of POSIX path of myPath & space & "/private/tmp" with administrator privileges
set cmd to "/private/tmp/myPath -r"
do shell script " " & cmd with administrator privileges
I wanted to know how not to pass it to /private/tmp, just run it from within the Resources folder of my project.