Problem with .MKVs (No Audio), How to remove header compression Options

[wuoma]

I've had my WD live hd for a while now and all videos have played with no problems.

Now however I've started to get some problems with some new .mkv files with 6ch audio.
First of all, I have tried both the digital and the stereo output and neither of them work. The videos live on my windows server share and I can play them perfectly well with my laptop using any program (for example VLC or media player classic) so the files are working.

The only thing I can see in common in these files is that they are new (like TV shows) and have similar audio

VLC gives me this info about the audio track of a file that refuses to play on the WD:
Dolby AC3 48000Hz 6ch
Codec: A52 Audio (aka AC3) (a52)
Language: English
Channels: 3F2R/LFE
Sampling rate: 48000 Hz
Bitrate: 448 kb/s

Any idea what is the matter or is this a feature?
Really frustrating and seemed to start just a couple of weeks ago.

EDIT: Tried with both the newest official FW and the newest beta.

[WDUser]

@pjerkanN: Can't understand exactly what you said there, but thanks for the link!

mkclean now comes with a tool called mkWDclean that removes the compressed header and zlib compressed from tracks in Matroska. That's a workaround to play in hardware players like the WD TV.

So as mentioned above, besides using MKVMerge GUI to manually remove header removal compression from affected MKVs, you can also download the mkclean package and use the included command-line mkWDclean utility to do the same.

[Jolst]

I don't know how to compile and use the mkWDclean utility they provide under OS X (UNIX) and I can't get much from the ReadMe.
Any help?