I am getting an error like this:
[WARN]Warning: Multiple build commands for output file /Developer/B/Be/build/Release-iphonesimulator/BB.app/no.png
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Yet another variation on this issue. I had the same message come up none of the previously suggested solutions solved the problem (I definitely only had one copy of the offending file for instance).
My solution was to edit the project.pbxproj file in a text editor (after quitting XCode and backing up the file of course) and remove all references to the offending file. Then, after starting XCode again, I manually added the file back into the project and everything was ok.
(My suspicion is that this problem happened to me because of a manual, ie: non-XCode, merge of the project file.)