diff --git a/pkgs/development/python-modules/phonopy/default.nix b/pkgs/development/python-modules/phonopy/default.nix
index f8fff2da8374..f1e53c10f103 100644
--- a/pkgs/development/python-modules/phonopy/default.nix
+++ b/pkgs/development/python-modules/phonopy/default.nix
@@ -9,7 +9,6 @@
   ninja,
   numpy,
   scikit-build-core,
-  setuptools,
   setuptools-scm,
 
   # dependencies
@@ -23,25 +22,29 @@
   pytestCheckHook,
 }:
 
-buildPythonPackage rec {
+buildPythonPackage (finalAttrs: {
   pname = "phonopy";
-  version = "2.47.1";
+  version = "3.2.1";
   pyproject = true;
 
   src = fetchFromGitHub {
     owner = "phonopy";
     repo = "phonopy";
-    tag = "v${version}";
-    hash = "sha256-zHEhYzSQKGre3LLtY555F3oTA8BowBy6InU79Mn2Cxo=";
+    tag = "v${finalAttrs.version}";
+    hash = "sha256-JSLwABXVYhGm9nb4W9M0AKCU98grBpfyHp5JB8KcIJc=";
   };
 
+  postPatch = ''
+    substituteInPlace pyproject.toml \
+      --replace-fail "nanobind<2.10.0" "nanobind"
+  '';
+
   build-system = [
     cmake
     nanobind
     ninja
     numpy
     scikit-build-core
-    setuptools
     setuptools-scm
   ];
   dontUseCmakeConfigure = true;
@@ -75,4 +78,4 @@ buildPythonPackage rec {
       chn
     ];
   };
-}
+})