Version 2 adds Apple's iTunes Plus codec to the list of codecs for the "Mastered for iTunes" program. Available only in the Mac version, Apple's iTunes Plus codec, like all perceptual audio codecs for the best possible sound quality, requires that its exact clipping behavior must be monitored and levels corrected if necessary. This saves time and ensures high quality output during the mixing/mastering process.

Other additions to Version 2 are: the latest MPEG Surround codec along with Advanced Audio Coding Low Complexity (AAC-LC) multi-channel and High Efficiency Advanced Audio Coding (HE-AAC) multi-channel support. This opens up Pro-Codec Ver 2 for multi-channel use by mixers/producers of surround music used for surround broadcasting and streaming.

Version 2 of the Sonnox Fraunhofer Pro-Codec Plug-In is available at the same price as Version 1 at $495. A free upgrade is available for Version 1 owners.