I had some trouble adding a new database to an OEM Grid installation this weekend.
I didn't find too many references to the above error so I wanted to post about it here. Of course Metalink was all doom and gloom. Note 745795.1 says to stop the agent, run fsck on the AGENT_HOME filesystem, then start the agent. After that you should be able to add new targets.
targets.xml lives in AGENT_HOME/sysman/emd. At the OS prompt I changed to that directory I was able to create new files there but for some reason the above error kept popping up when Grid tried to save a new target.