To fix this, you can add the argument /solo to the end of the arguments this ensures each comparison opens in a new window, working around the issue with tabs. If you run Beyond Compare in tabbed mode, it can get confused when you diff or merge more than one set of files at a time from Visual Studio. If using Beyond Compare v3/v4 Standard or Beyond Compare v2 (2-way Merge): If using Beyond Compare Professional (3-way Merge):
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