Yes, this version fixes audio sync problems with Zathura on 2-pass encoding.
It does not fix sync problems with 2-pass encoding on Ratatouille. Audio appears to be 2.5 seconds behind from the very start of the movie. I do not yet have 1-pass results.
Additionally, so far no files created with this version for clix gen 2 can play on the device.
Ratatouille (Reg 1, US)
Crop: automatic (320x134)
384kbps fixed bitrate
frame rate same as source