Index: lib/Sema/SemaTemplateInstantiateDecl.cpp
===================================================================
--- lib/Sema/SemaTemplateInstantiateDecl.cpp
+++ lib/Sema/SemaTemplateInstantiateDecl.cpp
@@ -3808,7 +3808,8 @@
       PendingInstantiations.push_back(
         std::make_pair(Function, PointOfInstantiation));
     } else if (TSK == TSK_ImplicitInstantiation) {
-      if (AtEndOfTU && !getDiagnostics().hasErrorOccurred()) {
+      if (AtEndOfTU && !getDiagnostics().hasErrorOccurred() &&
+          !getSourceManager().isInSystemHeader(PatternDecl->getLocStart())) {
         Diag(PointOfInstantiation, diag::warn_func_template_missing)
           << Function;
         Diag(PatternDecl->getLocation(), diag::note_forward_template_decl);
@@ -4338,7 +4339,8 @@
         std::make_pair(Var, PointOfInstantiation));
     } else if (TSK == TSK_ImplicitInstantiation) {
       // Warn about missing definition at the end of translation unit.
-      if (AtEndOfTU && !getDiagnostics().hasErrorOccurred()) {
+      if (AtEndOfTU && !getDiagnostics().hasErrorOccurred() &&
+          !getSourceManager().isInSystemHeader(PatternDecl->getLocStart())) {
         Diag(PointOfInstantiation, diag::warn_var_template_missing)
           << Var;
         Diag(PatternDecl->getLocation(), diag::note_forward_template_decl);
Index: test/SemaTemplate/undefined-template.cpp
===================================================================
--- test/SemaTemplate/undefined-template.cpp
+++ test/SemaTemplate/undefined-template.cpp
@@ -1,5 +1,6 @@
 // RUN: %clang_cc1 -fsyntax-only -verify -std=c++14 -Wundefined-func-template %s
 
+#if !defined(INCLUDE)
 template <class T> struct C1 {
   static char s_var_1;       // expected-note{{forward declaration of template entity is here}}
   static char s_var_2;       // expected-note{{forward declaration of template entity is here}}
@@ -142,6 +143,16 @@
   void h(X<int> x) { g(x); } // no warning for use of 'g' despite the declaration having been instantiated from a template
 }
 
+#define INCLUDE
+#include "undefined-template.cpp"
+void func_25(SystemHeader<char> *x) {
+  x->meth();
+}
+
 int main() {
   return 0;
 }
+#else
+#pragma clang system_header
+template <typename T> struct SystemHeader { T meth(); };
+#endif