I'm pretty sure you can use handbrake or ffmpeg to transmux vs transcode the .ts to .mp4 or .mpg, although I'm not the one to tell you how. Sadly, I don't know of a profile, VRD or otherwise, that would transmux a .ts file to either a .mpg or a .mp4 depending on whether that .ts file contained an MPEG2 or an h.264 video stream. I'm not even sure if there's a profile that would transmux a .ts containing h.264 to a .mp4 (even if it transcoded the .ts if it had an MPEG2 stream). I'd find that useful, because I only download .ts files from the channels that are h.264. Of course what I'd really like is for kmttg's VRD QS Fix step to output a .mp4 when a TS .tivo is being decrypted. Kevin has said that's not possible, so I just do that manually when I use VRD to review the ad cuts. Doing that saves a step since the transmux is happening at the same time as cutting out the ads.