Yup, I'm working on using "another sample description index" option and finding it hard to implement, as I first have to understand the MPEG4 format of using these tables and boxes.
I have an output mp4 that has two sample description boxes and two sample to chuck boxes, but i'm finding it hard to understand how to copy over the samples themselves from input mp4 files.
Sebastian if you have any sample code or a brief algorithm of how it is done using two mp4 files, and one track track in the output file that would be really awesome.