I've been getting the "there was internal api error" message in Xcode and I've finally figured out what the problem was. Apps run with the same bundle identifier will result in this error.
Turns out that the apps aren't being deleted in Organizer. When I delete them, they disappear. But when I quit Xcode, reopen, enter organizer, the applications are still there.
Are these Applications stored in Xcode or on my iDevice? Can I go in and manually remove them? What directory?
Has anyone had this problem? Solutions?
In Xcode 4 you can delete an archived application manually. Right click on it, Show in Finder, remove it as any other folder. Xcode will detect the deletion and update the list of archived apps.
Archives are just bundles with .xcarchive extension under ${HOME}/Library/Developer/Xcode/Archives. They are organized in folders by date (like 2011-11-11). You can look inside using Show Package Contents menu item, like any other bundle.