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On the enhancements:
E1. Should be fine (this is the frame.f_lineno <= 0 part of
the patch, right?).
E2. Nice addition. It could do with better docs. Come to
think of it, all of this needs to be documented. A new doc
section on running the module as a script would be nice. I
can write it, but it would be great if you could 
E3. Yes!
In general: 
* I'm not completely sure about this, but I'm thinking
do_debug_script() would fit better as a method on the Pdb
class. It seems to have a bit of feature envy towards the
pdb class. What do you think?
* I'd like to rename the method to runscript() for
consistency with the rest of pdb.
* You might want to read
http://python.org/peps/pep-0008.html, especially the
sections on Whitespace and Comments. While you're at it,
http://python.org/peps/pep-0257.html is important too.
That's it... for now.