from the options tab in tools tab, the source control tab should has also "visual studio team foundation server" for editing the diff/merge tools as this solution for the beyond compare problem: How to configure Visual Studio to use Beyond Compare
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In Source Control > Plug-in Selection, if you change the Current source control plug-in dropdown from Git to Visual Studio Team Foundation Server, it will add the Source Control > Visual Studio Team Foundation Server section so you can configure User Tools.

Chris Kennedy
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