In the Getting Started document is the following:
Refer to the LabVIEW Robotics Programming Guide for the FIRST Robotics Competition for more information about the cRIO and other programming procedures. You can access this guide by selecting the Tutorials tab on the LabVIEW Getting Started window, by navigating to the Progam Files\National Instruments\LabVIEW 2011\manuals\FRC Programming Guide directory and opening index.html or by browsing to http://www.ni.com/info and entering “FRCTutorials” for the Info Code.
You'll want to read the
Building and Deploying a Stand-Alone Application section. Most of what it tells you is already taken care of when you create a new FRC Robot Project and you won't have to make any changes to the Build Specifications. The two important steps are to
Build the application (which creates the standalone executable file that can run on the cRIO), then
Run as startup (which copies the newly built file to the cRIO and ensures it will start running when the cRIO reboots).