For example I get this error in Chrome console:
GET http://piwik.gligoran.com/piwik.php?action_name=Goran%20Gligorin&idsite=3&rec=1&r=982635&h=23&m=5&s=37&url=http%3A%2F%2Fwww.gorangligorin.com%2F&_id=/../&res=1920x1200 403 (Forbidden)
I've removed a part of the link for security, but it has the important parts (if not, say so and I'll provide more data).
Please fix this as soon as possible, so I can track my non-wordpress sites normally. To get this fixed ASAP, I would ask you to post where and how in the code I can correct this myself, so I don't have to wait for the next release.