I do not have a security.revocation.plist file. Just a security.plist one. Nothing at all with revocation in the name. Should I move that one?
Well that's strange. Create a new user account, trying Safari<https from there.
If you need direction for establishing the account:
[url=http://docs.info.apple.com/article.html?path=Mac/10.4/en/mh168.html]Here is guidance from Apple[/url] on how to set up the account. You can ignore step 7 in the article.
Also, on the system preference>Accounts panel, click on "log-in" options. There, select "fast user switching". This allows you to go back and forth between user accounts via an icon in your Menu Bar at the top of the computer screen.
Log-on to the new account and start Safari. If the https site icon appears in the new account, then your problem is specific to your regular user account. Otherwise, similar response means a system-wide problem.
Post back with results.