Thanks Daniel. Yes, I had a feeling that MKV wasn’t the way to go… What would be the best way of ripping the streams “natively” as you say?
Also, when you say “if you have TSMuxer you can demux these files and use the resulting elementary files for authoring”, you mean demux the M2TS files, correct? Won’t that accomplish the same thing as extracting the video and audio streams from the original MKV?