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The docs for the built-in function compile() say:
"Note: When compiling a string with multi-line statements, line endings 
must be represented by a single newline character ('\n'), and the input 
must be terminated by at least one newline character. If line endings 
are represented by '\r\n', use str.replace() to change them into '\n'."
http://www.python.org/doc/3.1/library/functions.html#compile
And the standard module py_compile ensures the source text ends with 
'\n' before calling the built-in compile function:
 if codestring and codestring[-1] != '\n':
 codestring = codestring + '\n'
I'd say the corresponding 2to3 fixer should do the same.