You can clone with
I got this problem on Windows even if I delete my q:\AppData\Sublime Text 2 and I re-install package control.
q:\AppData\Sublime Text 2
Unable to run package setup:
Traceback (most recent call last):
File ".\PackageSetup.py", line 165, in upgrade
upgradePackage(pkg, pristinedir, datadir, backupdir)
File ".\PackageSetup.py", line 158, in upgradePackage
os.path.join(backupdir, base), inhibitOverwrite)
File ".\PackageSetup.py", line 113, in upgradeArchive
File ".\shutil.py", line 88, in copy
File ".\shutil.py", line 53, in copyfile
IOError: [Errno 13] Permission denied: u'q:\\AppData\\Sublime Text 2\\Pristine Packages\\ActionScript.sublime-package'
So PackageSetup.py is actually part of Sublime, not Package Control.
That said, I would check and compare the file permissions on your Q: drive with the user Sublime is running as.
You're right. I got this problem the second time I open Sublime Text 2 after deleting q:\AppData\Sublime Text 2.
Sublime Text 2
Sorry for the noise.