I had this same problem, but for me it became easier when I changed the highlight color to a strong contrast (i.e., red) and I can find words much more easily using the side bar with that color.
I also have been very much enjoying this plugin http://www.gavinr.com/2011/03/28/sublime-text-2-highlight-all-instances-of-words/ for highlighting all matches of a selected word (or even phrase).
This was fixed today in the dev release build 2102.
- The copy command is now recorded in macros
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