Security on Invoked Programs

I stumbled on a list of programs not in the security setup.  A large number of them are invoked programs, so I looked for security classes with them to figure out what the naming convention/strategy was.  The last time I migrated from LAUA to LSF9 security, we had a plan, but I do not remember what we did with invoked programs.  I think we put them in their own security class by system code and assigned them every time we assigned the files for the system code because the invoked programs would never be executed by themselves.  I would like to know what others have done.