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RSE 2.0M5 SDK, Eclipse 3.3M3, Windows XP SP2, Sun Java 1.5.0_09 SSH Only connection to build.eclipse.org Select two (similar) remote files of same name in different folders. Choose right click > compare with > each other. Navigate through the difference, merge each one from left to right. When done, allow to wrap search to the beginning. Press the SAVE button. --> The modified file is saved correctly, but the difference markings are not updated. Wherever there was a change (that has been merged), there is still a light grey background color.