hi Joe.
as you;ve discovered Media MAnager will re-join many of your clips into single files.
it is trying to be as efficient with it’s media as possible.
my experience is that you need TWO frames missing between adjacent clips for MM to split them up.
when it done is actually gives you ONE frame back, weirdly enough.
if you have overlapping subclips, then you have two options.
one is to not use the Media Manager, but to BATCH EXPORT your subclips.
this will keep your reel# and TC, but loose and logging, or markers you have added.
if you need your logging and markers, then do this:
in the browser , sort your clips by reel# and Media Start.
drag them into a new sequence
in the sequence, select every SECOND CLIP, and drag them all up to V2,
so you have a checkerboard of clips V1, v2, V1, v2, etec.
now select all the V1 clips, and Media Manage them.
then select all the V2 clips and Media Manage THEM.
cheers,
nick