Remuxing the MKV to BD is easily doable (that's how I watch Star Wars v2.5 and Empire v2.0), but you'll need to cut down on the audio tracks, otherwise you won't be able to mux it into a usable BD folder. For me, I kept all the English-language tracks, the isolated score, and all the commentaries, dropping all the foreign audio as I don't have a need for it.
I used mkvmerge to make a new MKV with the audio and subtitle tracks I wanted, then fed the new MKV into tsmuxer to make my BDMV folder, and finally use imgburn to burn my BDMV folder to a BD-R. I don't know if you can bypass the mkvmerge step or not, I didn't try feeding the original MKV directly into tsmuxer.