diff --git a/pkgs/development/interpreters/python/cpython/default.nix b/pkgs/development/interpreters/python/cpython/default.nix
index e3874a4b8d42..abdf0a1ceb22 100644
--- a/pkgs/development/interpreters/python/cpython/default.nix
+++ b/pkgs/development/interpreters/python/cpython/default.nix
@@ -209,13 +209,15 @@ let
   nativeBuildInputs = [
     nukeReferences
   ]
-  ++ optionals (!stdenv.hostPlatform.isDarwin) [
+  ++ optionals (!stdenv.hostPlatform.isDarwin && !withMinimalDeps) [
     autoconf-archive # needed for AX_CHECK_COMPILE_FLAG
     autoreconfHook
   ]
-  ++ optionals (!stdenv.hostPlatform.isDarwin || passthru.pythonAtLeast "3.14") [
-    pkg-config
-  ]
+  ++
+    optionals ((!stdenv.hostPlatform.isDarwin || passthru.pythonAtLeast "3.14") && !withMinimalDeps)
+      [
+        pkg-config
+      ]
   ++ optionals (stdenv.hostPlatform != stdenv.buildPlatform) [
     buildPackages.stdenv.cc
     pythonOnBuildForHost