So far at least, there have been no major attacks directed against Skype. But its growing popularity and installed base will inevitably make it a hacker target, analysts said.

Companies will need to keep a close eye on both the sanctioned and the unsanctioned use of Skype on their networks, Pescatore said.

IT administrators may also need to impose measures such as denying local administration rights on the desktop, content control and management at the network gateways. They may also need to lay out clear policies and procedures for users, Wuchner-Bruhl said.

In the end, the use of Skype needs to be resolved in the same way companies have gone about addressing other P2P applications, including instant messaging, Bloor said. "But you are probably going to have something bad happen to someone first," he said.