diff --git a/NuGet.config b/NuGet.config
index 33913e033950..ff2c36788273 100644
--- a/NuGet.config
+++ b/NuGet.config
@@ -3,7 +3,7 @@
   <packageSources>
     <clear />
     <!--Begin: Package sources managed by Dependency Flow automation. Do not edit the sources below.-->
-    <add key="darc-pub-dotnet-core-setup-7d57652" value="https://pkgs.dev.azure.com/dnceng/public/_packaging/darc-pub-dotnet-core-setup-7d57652f/nuget/v3/index.json" />
+    <add key="darc-pub-dotnet-core-setup-65f04fb" value="https://pkgs.dev.azure.com/dnceng/public/_packaging/darc-pub-dotnet-core-setup-65f04fb6/nuget/v3/index.json" />
     <add key="darc-pub-dotnet-corefx-0f7f38c" value="https://pkgs.dev.azure.com/dnceng/public/_packaging/darc-pub-dotnet-corefx-0f7f38c4/nuget/v3/index.json" />
     <!--End: Package sources managed by Dependency Flow automation. Do not edit the sources above.-->
     <add key="dotnet-core" value="https://dotnetfeed.blob.core.windows.net/dotnet-core/index.json" />
diff --git a/eng/Version.Details.xml b/eng/Version.Details.xml
index 6178db2a4017..d58c63097f5d 100644
--- a/eng/Version.Details.xml
+++ b/eng/Version.Details.xml
@@ -281,10 +281,6 @@
       <Uri>https://github.com/aspnet/Extensions</Uri>
       <Sha>04bb33fefa1e681da5dd88ce9c0f50963443c646</Sha>
     </Dependency>
-    <Dependency Name="Microsoft.Internal.Extensions.Refs" Version="3.1.0-rtm.19575.5" CoherentParentDependency="Microsoft.EntityFrameworkCore">
-      <Uri>https://github.com/aspnet/Extensions</Uri>
-      <Sha>04bb33fefa1e681da5dd88ce9c0f50963443c646</Sha>
-    </Dependency>
     <Dependency Name="Microsoft.JSInterop" Version="3.1.0-rtm.19575.5" CoherentParentDependency="Microsoft.EntityFrameworkCore">
       <Uri>https://github.com/aspnet/Extensions</Uri>
       <Sha>04bb33fefa1e681da5dd88ce9c0f50963443c646</Sha>
@@ -385,10 +381,6 @@
       <Uri>https://github.com/dotnet/core-setup</Uri>
       <Sha>f15b6f92ec4c09d6e53dac4a890a1ceebb9b8ef1</Sha>
     </Dependency>
-    <Dependency Name="Microsoft.NETCore.App.Ref" Version="3.1.1-servicing.19575.1" CoherentParentDependency="Microsoft.Extensions.Logging">
-      <Uri>https://github.com/dotnet/core-setup</Uri>
-      <Sha>f15b6f92ec4c09d6e53dac4a890a1ceebb9b8ef1</Sha>
-    </Dependency>
     <!--
          Win-x64 is used here because we have picked an arbitrary runtime identifier to flow the version of the latest NETCore.App runtime.
          All Runtime.$rid packages should have the same version.
@@ -401,6 +393,15 @@
       <Uri>https://github.com/dotnet/core-setup</Uri>
       <Sha>7d57652f33493fa022125b7f63aad0d70c52d810</Sha>
     </Dependency>
+    <!-- Keep these dependencies at the bottom of ProductDependencies, else they will be picked as the parent for CoherentParentDependencies -->
+    <Dependency Name="Microsoft.NETCore.App.Ref" Version="3.1.0" Pinned="true">
+      <Uri>https://github.com/dotnet/core-setup</Uri>
+      <Sha>65f04fb6db7a5e198d05dbebd5c4ad21eb018f89</Sha>
+    </Dependency>
+    <Dependency Name="Microsoft.Internal.Extensions.Refs" Version="3.1.0-rtm.19565.4" Pinned="true">
+      <Uri>https://github.com/aspnet/Extensions</Uri>
+      <Sha>4e1be2fb546751c773968d7b40ff7f4b62887153</Sha>
+    </Dependency>
   </ProductDependencies>
   <ToolsetDependencies>
     <!-- Listed explicitly to workaround https://github.com/dotnet/cli/issues/10528 -->
diff --git a/eng/Versions.props b/eng/Versions.props
index f014c4b69e40..047f31a3e259 100644
--- a/eng/Versions.props
+++ b/eng/Versions.props
@@ -70,7 +70,7 @@
     <MicrosoftNetCompilersToolsetPackageVersion>3.4.0-beta4-19569-03</MicrosoftNetCompilersToolsetPackageVersion>
     <!-- Packages from dotnet/core-setup -->
     <MicrosoftExtensionsDependencyModelPackageVersion>3.1.1-servicing.19575.1</MicrosoftExtensionsDependencyModelPackageVersion>
-    <MicrosoftNETCoreAppRefPackageVersion>3.1.1-servicing.19575.1</MicrosoftNETCoreAppRefPackageVersion>
+    <MicrosoftNETCoreAppRefPackageVersion>3.1.0</MicrosoftNETCoreAppRefPackageVersion>
     <MicrosoftNETCoreAppRuntimewinx64PackageVersion>3.1.1-servicing.19575.1</MicrosoftNETCoreAppRuntimewinx64PackageVersion>
     <NETStandardLibraryRefPackageVersion>2.1.0</NETStandardLibraryRefPackageVersion>
     <!-- Packages from dotnet/corefx -->
@@ -159,7 +159,7 @@
     <MicrosoftExtensionsTypeNameHelperSourcesPackageVersion>3.1.0-rtm.19575.5</MicrosoftExtensionsTypeNameHelperSourcesPackageVersion>
     <MicrosoftExtensionsValueStopwatchSourcesPackageVersion>3.1.0-rtm.19575.5</MicrosoftExtensionsValueStopwatchSourcesPackageVersion>
     <MicrosoftExtensionsWebEncodersPackageVersion>3.1.0-rtm.19575.5</MicrosoftExtensionsWebEncodersPackageVersion>
-    <MicrosoftInternalExtensionsRefsPackageVersion>3.1.0-rtm.19575.5</MicrosoftInternalExtensionsRefsPackageVersion>
+    <MicrosoftInternalExtensionsRefsPackageVersion>3.1.0-rtm.19565.4</MicrosoftInternalExtensionsRefsPackageVersion>
     <MicrosoftJSInteropPackageVersion>3.1.0-rtm.19575.5</MicrosoftJSInteropPackageVersion>
     <MonoWebAssemblyInteropPackageVersion>3.1.0-preview4.19575.5</MonoWebAssemblyInteropPackageVersion>
     <!-- Packages from aspnet/EntityFrameworkCore -->