diff --git a/pkgs/build-support/cc-wrapper/add-flags.sh b/pkgs/build-support/cc-wrapper/add-flags.sh
index a6e991914e6b..c59118d6c09e 100644
--- a/pkgs/build-support/cc-wrapper/add-flags.sh
+++ b/pkgs/build-support/cc-wrapper/add-flags.sh
@@ -33,6 +33,20 @@ NIX_CFLAGS_COMPILE_@suffixSalt@="-B@out@/bin/ $NIX_CFLAGS_COMPILE_@suffixSalt@"
 # Export and assign separately in order that a failing $(..) will fail
 # the script.
 
+# Currently bootstrap-tools does not split glibc, and gcc files into
+# separate directories. As a workaround we want resulting cflags to be
+# ordered as: crt1-cflags libc-cflags cc-cflags. Otherwise we mix crt/libc.so
+# from different libc as seen in
+#   https://github.com/NixOS/nixpkgs/issues/158042
+#
+# Note that below has reverse ordering as we prepend flags one-by-one.
+# Once bootstrap-tools is split into different directories we can stop
+# relying on flag ordering below.
+
+if [ -e @out@/nix-support/cc-cflags ]; then
+    NIX_CFLAGS_COMPILE_@suffixSalt@="$(< @out@/nix-support/cc-cflags) $NIX_CFLAGS_COMPILE_@suffixSalt@"
+fi
+
 if [[ "$cInclude" = 1 ]] && [ -e @out@/nix-support/libc-cflags ]; then
     NIX_CFLAGS_COMPILE_@suffixSalt@="$(< @out@/nix-support/libc-cflags) $NIX_CFLAGS_COMPILE_@suffixSalt@"
 fi
@@ -49,10 +63,6 @@ if [ -e @out@/nix-support/libcxx-ldflags ]; then
     NIX_CXXSTDLIB_LINK_@suffixSalt@+=" $(< @out@/nix-support/libcxx-ldflags)"
 fi
 
-if [ -e @out@/nix-support/cc-cflags ]; then
-    NIX_CFLAGS_COMPILE_@suffixSalt@="$(< @out@/nix-support/cc-cflags) $NIX_CFLAGS_COMPILE_@suffixSalt@"
-fi
-
 if [ -e @out@/nix-support/gnat-cflags ]; then
     NIX_GNATFLAGS_COMPILE_@suffixSalt@="$(< @out@/nix-support/gnat-cflags) $NIX_GNATFLAGS_COMPILE_@suffixSalt@"
 fi