I know this is an old post but I just found it looking for where I can edit the command that gets the running config. And, I am having a problem with a startup/running config conflict based on the cert info being present in the running config.
As someone said above, 'show running-config brief' or 'sh run br' wll show the running config minus the certificate info. Hopefully, this will match your startup config and prevent those false positives.
Now I just need to workout where to change that command in Solarwinds!