I do most of my compositing in After Effects. What I tend to do is when I lock )finalize) the cut and know what footage I need for the compositing, I output an EDL of the footage I use in the temp composite and capture that footage at full rez and re-do or adjust the project to fit the footage, then tweak it where needed.
Painful process that I have only done twice. But I get good results.
It would be easier if I invest in Automatic Duck for this purpose.