Best Sony EX-3 XDCAM EX workflow (SxS into FCPro)

Hey
I am doing a documentary project shot
with the Sony EX-3 tapeless camera
and I have the correct plug-ins and have
successfully Logged and Transferred some test files
into Final Cut Pro 6
My question is that I have over 7 different production days'
worth of footage (200+ gigs on a Firewire 800 external drive)
and some of it was data-wrangled it different ways
(e.g. some was Logged & Transferred on-location, the majority
was dragged and dropped directly from the tapeless card)
I don't know how to correctly "consolidate" all these files
so they're not all living in BPAV and CLPR nested folders
and can simply be in one central Capture Scratch folder
and all be organized in sub-folders there according to production days
I know this is more of a Sony-esque question, but does
anyone have experiencing with this workflow in Final Cut
and how to best make the job run smoothly, especially for a
long-form feature that will have lots of more SxS files coming in down the road
thank you

If you have mixed BPAV folders together or removed any of the files from these folders you may be in trouble. The proper way of managing the BPAV folder is to make a new folder for each cards BPAV folder and never mixing BPAV folders together. I have heard that orphan mp4 files can be fixed using the latest Sony Clip Browser program, but I haven't tried this.
http://www.sony.co.uk/biz/view/ShowContent.action?site=bizenGB&category=BC&contentId=1193315622075&sectiontype=BC&preserveContext=true
Good Luck
Z1

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