Revert removal of workaround

Probably the change to not prune packages if there are no FrameworkReferences reverted this to the old behavior

Author: dsplaisted

test/Microsoft.NET.Publish.Tests/GivenThatWeWantToStoreAProjectWithDependencies.cs

@@ -78,6 +78,12 @@ public void compose_dependencies()
                "fluentassertions.json/4.12.0/lib/netstandard1.3/FluentAssertions.Json.dll"
                };
 
+            if (!RuntimeInformation.IsOSPlatform(OSPlatform.Windows))
+            {
+                // https://github.com/dotnet/core-setup/issues/2716 - an unintended native shim is getting published to the runtime store
+                files_on_disk.Add($"runtime.{_runtimeRid}.runtime.native.system.security.cryptography/1.0.1/runtimes/{_runtimeRid}/native/System.Security.Cryptography.Native{FileConstants.DynamicLibSuffix}");
+            }
+
             storeDirectory.Should().OnlyHaveFiles(files_on_disk);
         }
 
@@ -108,6 +114,12 @@ public void compose_dependencies_noopt()
                "fluentassertions.json/4.12.0/lib/netstandard1.3/FluentAssertions.Json.dll"
                };
 
+            if (!RuntimeInformation.IsOSPlatform(OSPlatform.Windows))
+            {
+                // https://github.com/dotnet/core-setup/issues/2716 - an unintended native shim is getting published to the runtime store
+                files_on_disk.Add($"runtime.{_runtimeRid}.runtime.native.system.security.cryptography/1.0.1/runtimes/{_runtimeRid}/native/System.Security.Cryptography.Native{FileConstants.DynamicLibSuffix}");
+            }
+
             storeDirectory.Should().OnlyHaveFiles(files_on_disk);
         }
 
@@ -145,6 +157,12 @@ public void compose_multifile()
                "fluentassertions.json/4.12.0/lib/netstandard1.3/FluentAssertions.Json.dll",
                };
 
+            if (!RuntimeInformation.IsOSPlatform(OSPlatform.Windows))
+            {
+                // https://github.com/dotnet/core-setup/issues/2716 - an unintended native shim is getting published to the runtime store
+                files_on_disk.Add($"runtime.{_runtimeRid}.runtime.native.system.security.cryptography/1.0.1/runtimes/{_runtimeRid}/native/System.Security.Cryptography.Native{FileConstants.DynamicLibSuffix}");
+            }
+
             storeDirectory.Should().OnlyHaveFiles(files_on_disk);
 
             var knownpackage = new HashSet<PackageIdentity>