Right now, I think the best would be to send the test script and matrix 
upstream, to see if they can reproduce it.
This could give us some clues on where to start.

http://projects.scipy.org/scipy/scipy

If you open a ticket, please let us know the number so that we can track
the discussion.

I've checked their tracker to see if there was any similar problem
reported, but couldn't  find any:

http://projects.scipy.org/scipy/scipy/search?q=svd&noquickjump=1&ticket=on&changeset=on&wiki=on

-- 
Error in linalg.svd for large matrix
https://bugs.launchpad.net/bugs/134277
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