In preparations of Apple's requirement of 64bit support in all iOS app, we enabled the 64 bit support for the Linphone iPhone SDK.
It is now built along with the armv7 and i386 architectures, so you should be able to simply update to the latest GIT version, rebuild the SDK, and ship your app with 64bit support enabled.
You can also grab the latest binary SDK by downloading this file: http://linphone.org/technical-corner/liblinphone