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It would be nice if EGit can somehow integrate with Keyring on Mac OS X for storing passphrases of SSH keys. FWIW, there is a workaround available by using the native SSH agent: http://wiki.eclipse.org/EGit/FAQ#Store_SSH_Key_Passphrase_in_Mac_Keyring
Same quite annoying drawback of EGit affects Ubuntu where I also still and still need to type my SSH passphrase. However also the same workaround (setting GIT_SSH=/usr/bin/ssh) helps, it is really annoying and should be addressed in further versions.
*** Bug 545684 has been marked as a duplicate of this bug. ***
This is now working in 5.3 with the Apache MINA SSHD client.