Hi,
For Archiving option,
The following types of content can be archived:
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Peer-to-peer instant messages
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Conferences (meetings), which are multiparty instant messages
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Conference content, including uploaded content (for example, handouts) and event-related content (for example, joining, leaving, uploading sharing, and changes in visibility)
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Whiteboards and polls shared during a conference
The following types of content are not archived:
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Peer-to-peer file transfers
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Audio/video for peer-to-peer instant messages and conferences
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Desktop and application sharing for peer-to-peer instant messages and conferences
You may need to custom your own Lync client, you can post the question on MSDN Lync SDK forum. Thank you for your understanding.
http://social.msdn.microsoft.com/Forums/en-US/communicatorsdk/threads