Visual studio 2012 overwrites properties in my .csproj project file

Question

I am using Visual Studio 2012. I have many projects each containing at least one .csproj file. The .csproj files contain this section:

  <PropertyGroup Condition="'$(Configuration)|$(Platform)' == 'Release|AnyCPU'">
    <TreatWarningsAsErrors>true</TreatWarningsAsErrors>
    <IntermediateOutputPath>Assembly\Release\</IntermediateOutputPath>
  </PropertyGroup>
  <PropertyGroup Condition="'$(Configuration)|$(Platform)' == 'Debug|AnyCPU'">
    <IntermediateOutputPath>Assembly\Debug\</IntermediateOutputPath>
  </PropertyGroup>
  <PropertyGroup Condition="'$(Configuration)|$(Platform)' == 'Debug|x86'">
    <IntermediateOutputPath>Assembly\x86\Debug\</IntermediateOutputPath>
  </PropertyGroup>
  <PropertyGroup Condition="'$(Configuration)|$(Platform)' == 'Release|x86'">
    <IntermediateOutputPath>Assembly\x86\Release\</IntermediateOutputPath>
  </PropertyGroup>

For some reason, whenever I open the project in Visual Studio, saving it changes the .csproj file to look like this:

  <PropertyGroup Condition="'$(Configuration)|$(Platform)' == 'Release|AnyCPU'">
    <TreatWarningsAsErrors>true</TreatWarningsAsErrors>
    <IntermediateOutputPath>C:\Users\user\AppData\Local\Temp\vs9475.tmp\Release\</IntermediateOutputPath>
  </PropertyGroup>
  <PropertyGroup Condition="'$(Configuration)|$(Platform)' == 'Debug|AnyCPU'">
    <IntermediateOutputPath>C:\Users\user\AppData\Local\Temp\vs9475.tmp\Debug\</IntermediateOutputPath>
  </PropertyGroup>
  <PropertyGroup Condition="'$(Configuration)|$(Platform)' == 'Debug|x86'">
    <IntermediateOutputPath>C:\Users\user\AppData\Local\Temp\vs9475.tmp\x86\Debug\</IntermediateOutputPath>
  </PropertyGroup>
  <PropertyGroup Condition="'$(Configuration)|$(Platform)' == 'Release|x86'">
    <IntermediateOutputPath>C:\Users\user\AppData\Local\Temp\vs9475.tmp\x86\Release\</IntermediateOutputPath>
  </PropertyGroup>

I have tried several things including adding a BaseIntermediateOutputPath element as well as creating separate conditional IntermediateOutputPath elements. The problem is that this messes with our version control and also generates errors when someone other than myself loads it (because of the local path). Can anyone tell me how to stop visual studio from changing the file every time we load it? This happens to everyone who opens it in Visual Studio 2012. It worked in 2010 but we are transitioning and need to fix this. It is a 2012 project.