That had to do with the code updating the site being confused about the state of your browsing session. Poor server-side code, sounds like. Don't blame cookies for that.
This cookie paranoia... It's like... You know, to build a gallows or a guillotine or a gas chamber, you have to use a hammer. So now hammers are evil? No, a hammer is a tool that can be put to many many purposes. Cookies are a tool (that have some very security-conscious user-centric developer-curtailing limitations built in) that can be used for purposes that perhaps make some people a touch uncomfortable, but mostly they're completely harmless.
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