I'm also having a similar problem. Whenever I give out my Evernote email address and receive emails directly from businesses I am unable to click on any of the links. Is there a setting that I need to change?
I did delete the AppStore Evernote application and then went to the Evernote site to download their application manually and it still doesn't work. And, I'm running Mountain Lion. If anyone has any suggestions they would be greatly appreciated.