Internal storage and Cyanogen problems

I experience a strange thing when installing CM 11 in my p880 the internal storage appears in CM empty (freshly initialized) despite there having been files before installing CM from that storage.
Now, when I boot back to ClockWork it shows me the new empty /sdcard but when I install a backup from the external sd card of the stock OS than the contents of the internal SD card is back and all the stuff that CM created/added is located inside a subdirectory of it /sdcard/0/
And no the backup did not contain the contents of the internal storage only boot.img /system and /data and /cache

So apparently Cm11 is handling the internal storage differently from he stock ROM in a way that makes its original content inaccessible :/

What wonders me the most is that ClockWork assumes the internal storage behavior of the installed ROM shouldn't that be independent?

That surly must be a known behavior so whats up with that can I somehow make CM use the internal sd instead of its /0/ subdirectory.

Or is the only way to not have inaccessible files to format the sd card from ClockWork while it still shows it properly just before flashing cm11?

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