The following forum message was posted by fabioz at 
http://sourceforge.net/projects/pydev/forums/forum/293649/topic/4366170:

Yes, the problem is that virtualenv for Pydev is just another interpreter, so,
it makes no distinction on the paths that should be added to the pythonpath
(which as you saw has to be done manually -- pydev does present those folders
when you add the interpreter, but they come unchecked).

And yes, this is a bit strange, but I couldn't find out how to know that a given
Python is actually running based on another Python -- this is done through 
Python
itself in https://github.com/aptana/Pydev/blob/master/plugins/org.python.pydev/P
ySrc/interpreterInfo.py when determining the 'INS_PATH' and 'OUT_PATH' -- 
basically
the folders from the base install should be marked as 'INS_PATH' in that code
-- so, if someone can figure that out, I'll gladly apply the patch to fix that
;-)

Cheers,

Fabio

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