In my current client engagement I've been working on a MySite implementation, so naturally I've had to mess with the Shared Services Provider quite a bit.  For reasons unknown to me, the SSP/MySites got messed up and I had to delete them.  The problem was that you can't easily delete a SSP from the central admin, so once again STSADM to the rescue....

stsadm -o deletessp -title <YourSSPTitleHere> -force

The key here is -force, depending on the situation, if you don't add -force, your SSP won't be fully deleted.


Disclaimer
The opinions expressed herein are my own personal opinions and do not represent my employer's view in anyway.

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