Starting with the September 24, 2011 release of Marketo, Programs must have an associated  cost in order for them to show up in the analyzer. 

If you want a no-cost program to show up RCA, then it must have a zero cost created in the setup.

1.  Go to Programs and select Setup
2.  Drag in a cost and add 0 (zero)
3.  Save the changes

You should now be able to see your Programs in the Analyzers.

"Only programs that have cost will show up in RCA reports."