If I get you right, you may find the below-mentioned thread useful.
https://groups.google.com/group/web2py/browse_thread/thread/b6c0cf5d61d0c565/a40a34c4f91661bb?lnk=gst&q=eclipse#a40a34c4f91661bb
(See the procedure by "Miguel Lopes" near the end of the above thread-
link)

BTW, Thanks a lot Miguel Lopes for the comprehensive procedure
writeup.
It solved all my problems regarding web2py with Eclipse/PyDev

--- Vineet

On Oct 31, 5:14 pm, Tim Korb <jtk...@gmail.com> wrote:
> Did you resolve this issue any further?  I'm getting the same error in a
> similar setting.  I'm trying to run a shell script from within web2py.  The
> shell script launches python web2py to run an asynchronous background task.
>  The task fails with the same "import site" error message.
>
> If I start web2py from within Eclipse I get the error, if I start web2py
> externally (in a shell), it works.
>
> Tim

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