The box is a debian (wheezy):
ci@random:~/Prog/cpython/benchmarks/py2$ uname -a
Linux random 3.2.0-3-amd64 #1 SMP Mon Jul 23 02:45:17 UTC 2012 x86_64 GNU/Linux

The source repository dir:
ci@random:~/Prog/cpython/benchmarks/py2$ dir
lib  LICENSE.txt  make_perf3.sh  performance  perf.py  perf.pyc  README.txt  test_perf.py

Then:

ci@random:~/Prog/cpython/benchmarks/py2$ cd ..
ci@random:~/Prog/cpython/benchmarks$ mkdir benchmarks_py3k
ci@random:~/Prog/cpython/benchmarks$ dir
benchmarks_py3k  py2
ci@random:~/Prog/cpython/benchmarks$ cd benchmarks_py3k/
ci@random:~/Prog/cpython/benchmarks/benchmarks_py3k$
ci@random:~/Prog/cpython/benchmarks/benchmarks_py3k$ /usr/bin/python2.6 -V
Python 2.6.8
ci@random:~/Prog/cpython/benchmarks/benchmarks_py3k$ PYTHON=/usr/bin/python2.6 ../py2/make_perf3.sh ../py2
RefactoringTool: Skipping implicit fixer: buffer
RefactoringTool: Skipping implicit fixer: idioms
...
RefactoringTool: Warnings/messages while refactoring:
RefactoringTool: ### In file lib/2to3/example.py ###
RefactoringTool: Line 371: You should use a for loop here
RefactoringTool: Line 372: You should use a for loop here
RefactoringTool: Line 373: You should use a for loop here
RefactoringTool: Line 374: You should use a for loop here
RefactoringTool: Line 375: You should use a for loop here
RefactoringTool: ### In file lib/2to3/example.py ###
RefactoringTool: Line 393: You should use 'hasattr(foo, '__call__')' here.
RefactoringTool: Line 394: You should use 'operator.contains(foo, bar)' here.
RefactoringTool: Skipping implicit fixer: buffer
...
RefactoringTool: lib/mako/test/templates/subdir/foo/modtest.html.py
ci@random:~/Prog/cpython/benchmarks/benchmarks_py3k$ python3 -V
Python 3.2.3
python3 perf.py -f -b 2to3 `which python3` `which python3`
Running 2to3...
INFO:root:Running /usr/bin/python3 lib/2to3/2to3 -f all lib/2to3/lib2to3/refactor.py
INFO:root:Running `['/usr/bin/python3', 'lib/2to3/2to3', '-f', 'all', 'lib/2to3/lib2to3/refactor.py']` 1 time
INFO:root:Running /usr/bin/python3 lib/2to3/2to3 -f all lib/2to3/lib2to3/refactor.py
INFO:root:Running `['/usr/bin/python3', 'lib/2to3/2to3', '-f', 'all', 'lib/2to3/lib2to3/refactor.py']` 1 time

Report on Linux random 3.2.0-3-amd64 #1 SMP Mon Jul 23 02:45:17 UTC 2012 x86_64 
Total CPU cores: 4

### 2to3 ###
0.616038 -> 0.624039: 1.01x slower


And further:
ci@random:~/Prog/cpython/benchmarks/benchmarks_py3k$ dir
lib  performance  perf.py
cd lib/2to3
ci@random:~/Prog/cpython/benchmarks/benchmarks_py3k/lib/2to3$ dir
2to3  example.py  HACKING  lib2to3  README  scripts  test.py
ci@random:~/Prog/cpython/benchmarks/benchmarks_py3k/lib/2to3$ python3 test.py 2> testsResult2.txt