diff --git a/clang/lib/Tooling/DependencyScanning/DependencyScanningWorker.cpp b/clang/lib/Tooling/DependencyScanning/DependencyScanningWorker.cpp
--- a/clang/lib/Tooling/DependencyScanning/DependencyScanningWorker.cpp
+++ b/clang/lib/Tooling/DependencyScanning/DependencyScanningWorker.cpp
@@ -177,6 +177,7 @@
     if (Opts->Targets.empty())
       Opts->Targets = {deduceDepTarget(Compiler.getFrontendOpts().OutputFile,
                                        Compiler.getFrontendOpts().Inputs)};
+    Opts->IncludeSystemHeaders = true;
 
     switch (Format) {
     case ScanningOutputFormat::Make:
diff --git a/clang/tools/clang-scan-deps/ClangScanDeps.cpp b/clang/tools/clang-scan-deps/ClangScanDeps.cpp
--- a/clang/tools/clang-scan-deps/ClangScanDeps.cpp
+++ b/clang/tools/clang-scan-deps/ClangScanDeps.cpp
@@ -502,8 +502,6 @@
           AdjustedArgs.push_back("/clang:-o");
           AdjustedArgs.push_back("/clang:" + LastO);
         }
-        AdjustedArgs.push_back("-Xclang");
-        AdjustedArgs.push_back("-sys-header-deps");
 
         if (!HasResourceDir) {
           StringRef ResourceDir =