So is your Temporary Internet Files folder now empty?
You can delete pretty much everything under there, though if you were having IE auto login to websites and stuff you will have to relog in, so hopefully you have all your passwords
A safer way to delete temp internet files though is from IE itself. Click the gear->Internet Options->General tab->Delete Browsing History . There are several categories of things to delete.
You can also go to Manage Addons on the Programs tab on the same dialog. You may have a bunch of addons or maybe some ones you don't know about!