I had a client find out the hard way about a huge issue in CLM 6061 iFix003. Essentially, if you use JRS to report against CM-enabled projects, JRS can no longer see configurations.
If you use JRS to report against configuration management opted-in projects, and are on any 6.0.6.1 application, do not update to iFix003.
The good news is that if this happened to you, the solution is simple: remove iFix003. For JRS, this means replacing the war file–so keep that in mind.