diff --git a/pkgs/applications/editors/vim/configurable.nix b/pkgs/applications/editors/vim/configurable.nix
index bc317b91597e..d5dd00b4aa60 100644
--- a/pkgs/applications/editors/vim/configurable.nix
+++ b/pkgs/applications/editors/vim/configurable.nix
@@ -3,7 +3,7 @@
 , libX11, libXext, libSM, libXpm, libXt, libXaw, libXau, libXmu
 , libICE
 , vimPlugins
-, makeWrapper, makeBinaryWrapper
+, makeWrapper
 , wrapGAppsHook
 , runtimeShell
 
@@ -133,9 +133,7 @@ in stdenv.mkDerivation rec {
   ++ lib.optional wrapPythonDrv makeWrapper
   ++ lib.optional nlsSupport gettext
   ++ lib.optional perlSupport perl
-  # Make the inner wrapper binary to avoid double wrapping issues with wrapPythonDrv
-  # (https://github.com/NixOS/nixpkgs/pull/164163)
-  ++ lib.optional (guiSupport == "gtk3") (wrapGAppsHook.override { makeWrapper = makeBinaryWrapper; })
+  ++ lib.optional (guiSupport == "gtk3") wrapGAppsHook
   ;
 
   buildInputs = [
diff --git a/pkgs/build-support/setup-hooks/make-binary-wrapper.sh b/pkgs/build-support/setup-hooks/make-binary-wrapper.sh
index 986be5b9e113..7123f100c175 100644
--- a/pkgs/build-support/setup-hooks/make-binary-wrapper.sh
+++ b/pkgs/build-support/setup-hooks/make-binary-wrapper.sh
@@ -33,6 +33,8 @@ assertExecutable() {
 # To troubleshoot a binary wrapper after you compiled it,
 # use the `strings` command or open the binary file in a text editor.
 makeWrapper() {
+    local NIX_CFLAGS_COMPILE NIX_CFLAGS_LINK
+    unset NIX_CFLAGS_COMPILE NIX_CFLAGS_LINK
     local original="$1"
     local wrapper="$2"
     shift 2
diff --git a/pkgs/build-support/setup-hooks/wrap-gapps-hook/default.nix b/pkgs/build-support/setup-hooks/wrap-gapps-hook/default.nix
index d0ea088bf71e..8c10f67c152c 100644
--- a/pkgs/build-support/setup-hooks/wrap-gapps-hook/default.nix
+++ b/pkgs/build-support/setup-hooks/wrap-gapps-hook/default.nix
@@ -1,7 +1,7 @@
 { stdenv
 , lib
 , makeSetupHook
-, makeWrapper
+, makeBinaryWrapper
 , gobject-introspection
 , isGraphical ? true
 , gtk3
@@ -34,7 +34,7 @@ makeSetupHook {
   ] ++ [
 
     # We use the wrapProgram function.
-    makeWrapper
+    makeBinaryWrapper
   ];
   substitutions = {
     passthru.tests = let
@@ -59,8 +59,8 @@ makeSetupHook {
         tested = basic;
       in testLib.runTest "basic-contains-dconf" (
         testLib.skip stdenv.isDarwin ''
-          ${expectSomeLineContainingYInFileXToMentionZ "${tested}/bin/foo" "GIO_EXTRA_MODULES=" "${dconf.lib}/lib/gio/modules"}
-          ${expectSomeLineContainingYInFileXToMentionZ "${tested}/libexec/bar" "GIO_EXTRA_MODULES=" "${dconf.lib}/lib/gio/modules"}
+          ${expectSomeLineContainingYInFileXToMentionZ "${tested}/bin/foo" "GIO_EXTRA_MODULES" "${dconf.lib}/lib/gio/modules"}
+          ${expectSomeLineContainingYInFileXToMentionZ "${tested}/libexec/bar" "GIO_EXTRA_MODULES" "${dconf.lib}/lib/gio/modules"}
         ''
       );
 
@@ -98,8 +98,8 @@ makeSetupHook {
       typelib-user-has-gi-typelib-path = let
         tested = typelib-user;
       in testLib.runTest "typelib-user-has-gi-typelib-path" ''
-        ${expectSomeLineContainingYInFileXToMentionZ "${tested}/bin/foo" "GI_TYPELIB_PATH=" "${typelib-Mahjong}/lib/girepository-1.0"}
-        ${expectSomeLineContainingYInFileXToMentionZ "${tested}/libexec/bar" "GI_TYPELIB_PATH=" "${typelib-Mahjong}/lib/girepository-1.0"}
+        ${expectSomeLineContainingYInFileXToMentionZ "${tested}/bin/foo" "GI_TYPELIB_PATH" "${typelib-Mahjong}/lib/girepository-1.0"}
+        ${expectSomeLineContainingYInFileXToMentionZ "${tested}/libexec/bar" "GI_TYPELIB_PATH" "${typelib-Mahjong}/lib/girepository-1.0"}
       '';
 
       # Simple derivation containing a gobject-introspection typelib in lib output.
@@ -143,8 +143,8 @@ makeSetupHook {
       typelib-multiout-user-has-gi-typelib-path = let
         tested = typelib-multiout-user;
       in testLib.runTest "typelib-multiout-user-has-gi-typelib-path" ''
-        ${expectSomeLineContainingYInFileXToMentionZ "${tested}/bin/foo" "GI_TYPELIB_PATH=" "${typelib-Bechamel.lib}/lib/girepository-1.0"}
-        ${expectSomeLineContainingYInFileXToMentionZ "${tested}/libexec/bar" "GI_TYPELIB_PATH=" "${typelib-Bechamel.lib}/lib/girepository-1.0"}
+        ${expectSomeLineContainingYInFileXToMentionZ "${tested}/bin/foo" "GI_TYPELIB_PATH" "${typelib-Bechamel.lib}/lib/girepository-1.0"}
+        ${expectSomeLineContainingYInFileXToMentionZ "${tested}/libexec/bar" "GI_TYPELIB_PATH" "${typelib-Bechamel.lib}/lib/girepository-1.0"}
       '';
 
       # Simple derivation that contains a typelib as well as a program using it.
@@ -169,8 +169,8 @@ makeSetupHook {
       typelib-self-user-has-gi-typelib-path = let
         tested = typelib-self-user;
       in testLib.runTest "typelib-self-user-has-gi-typelib-path" ''
-        ${expectSomeLineContainingYInFileXToMentionZ "${tested}/bin/foo" "GI_TYPELIB_PATH=" "${typelib-self-user}/lib/girepository-1.0"}
-        ${expectSomeLineContainingYInFileXToMentionZ "${tested}/libexec/bar" "GI_TYPELIB_PATH=" "${typelib-self-user}/lib/girepository-1.0"}
+        ${expectSomeLineContainingYInFileXToMentionZ "${tested}/bin/foo" "GI_TYPELIB_PATH" "${typelib-self-user}/lib/girepository-1.0"}
+        ${expectSomeLineContainingYInFileXToMentionZ "${tested}/libexec/bar" "GI_TYPELIB_PATH" "${typelib-self-user}/lib/girepository-1.0"}
       '';
     };
   };
diff --git a/pkgs/build-support/setup-hooks/wrap-gapps-hook/tests/lib.nix b/pkgs/build-support/setup-hooks/wrap-gapps-hook/tests/lib.nix
index 1757bdbbe250..42866c3419dd 100644
--- a/pkgs/build-support/setup-hooks/wrap-gapps-hook/tests/lib.nix
+++ b/pkgs/build-support/setup-hooks/wrap-gapps-hook/tests/lib.nix
@@ -1,5 +1,4 @@
-{ runCommand
-}:
+{ lib, runCommand }:
 
 rec {
   runTest = name: body: runCommand name { } ''
@@ -19,12 +18,14 @@ rec {
   '';
 
   expectSomeLineContainingYInFileXToMentionZ = file: filter: expected: ''
-    if ! cat "${file}" | grep "${filter}"; then
-        ${fail "The file “${file}” should include a line containing “${filter}”."}
+    file=${lib.escapeShellArg file} filter=${lib.escapeShellArg filter} expected=${lib.escapeShellArg expected}
+
+    if ! grep --text --quiet "$filter" "$file"; then
+        ${fail "The file “$file” should include a line containing “$filter”."}
     fi
 
-    if ! cat "${file}" | grep "${filter}" | grep ${expected}; then
-        ${fail "The file “${file}” should include a line containing “${filter}” that also contains “${expected}”."}
+    if ! grep --text "$filter" "$file" | grep --text --quiet "$expected"; then
+        ${fail "The file “$file” should include a line containing “$filter” that also contains “$expected”."}
     fi
   '';
 }