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In 12C , we have a different architecture as compared to 10G/11G Grid.
We have new target type which is Oracle Home and status will be n/a which is correct.
agent12c1_3_<hostname> shows oracle home for agent oracle home.
As Rajesh has noted, the new agent has multiple HOMEs for separate components. There is the traditional HOME (core), and instance, sbin and plugin locations. This Oracle note has a great summary: 12c Cloud Control Agent - Details of the Directory Structure and Commonly Used Locations in a 12c Agent Installation [ID 1386113.1]. I used it to set the correct environments as I patch the components.
That is most helpful, thank you.