diff --git a/util/postprocess-makedepend.pl b/util/postprocess-makedepend.pl
index 790738015f85043ae076365814182be8a08f5e5d..5d0cf3d02aeb0b3df898b59aaddef3ce95fc8906 100644
--- a/util/postprocess-makedepend.pl
+++ b/util/postprocess-makedepend.pl
@@ -9,8 +9,15 @@
 use strict;
 use warnings;
 
-my $producer = shift @ARGV;
+use lib '.';
+use configdata;
+
+use File::Spec::Functions qw(canonpath rel2abs);
+
+my $abs_srcdir = rel2abs($config{sourcedir});
+my $abs_blddir = rel2abs($config{builddir});
 
+my $producer = shift @ARGV;
 die "Producer not given\n" unless $producer;
 
 my $procedure = {
@@ -98,7 +105,15 @@ my $procedure = {
 
             if (/^Note: including file: */) {
                 (my $tail = $') =~ s/\s*\R$//;
-                return "${object}: \"$tail\"\n";
+
+                # VC gives us absolute paths for all include files, so to
+                # remove system header dependencies, we need to check that
+                # they don't match $abs_srcdir or $abs_blddir
+                $tail = canonpath($tail);
+                if ($tail =~ m|^\Q$abs_srcdir\E|i
+                        || $tail =~ m|^\Q$abs_blddir\E|i) {
+                    return "${object}: \"$tail\"\n";
+                }
             }
 
             return undef;