diff --git a/pkgs/development/libraries/science/math/or-tools/default.nix b/pkgs/development/libraries/science/math/or-tools/default.nix
index 3c3fac71a1e4..496511252247 100644
--- a/pkgs/development/libraries/science/math/or-tools/default.nix
+++ b/pkgs/development/libraries/science/math/or-tools/default.nix
@@ -7,7 +7,7 @@
   eigen,
   ensureNewerSourcesForZipFilesHook,
   fetchFromGitHub,
-  replaceVars,
+  fetchpatch,
   glpk,
   lib,
   pkg-config,
@@ -20,28 +20,27 @@
   zlib,
 }:
 
-let
-  pybind11_protobuf = fetchFromGitHub {
-    owner = "pybind";
-    repo = "pybind11_protobuf";
-    rev = "b713501f1da56d9b76c42f89efd00b97c26c9eac";
-    hash = "sha256-f6pzRWextH+7lm1xzyhx98wCIWH3lbhn59gSCcjsBVw=";
-  };
-in
 stdenv.mkDerivation rec {
   pname = "or-tools";
-  version = "9.7";
+  version = "9.9";
 
   src = fetchFromGitHub {
     owner = "google";
     repo = "or-tools";
     rev = "v${version}";
-    hash = "sha256-eHukf6TbY2dx7iEf8WfwfWsjDEubPtRO02ju0kHtASo=";
+    hash = "sha256-Ip2mKl+MuzOPaF1a2FTubqT0tA4gzDnD8dR7dLaHHo8=";
   };
 
   patches = [
-    (replaceVars ./offline.patch {
-      pybind11_protobuf = "../../pybind11_protobuf";
+    (fetchpatch {
+      name = "0001-Allow-to-use-pybind11-system-packages.patch";
+      url = "https://build.opensuse.org/public/source/science/google-or-tools/0001-Allow-to-use-pybind11-system-packages.patch?rev=18";
+      hash = "sha256-+hFgZt9G0EMpMMXA/qnHjOdk6+eIlgV6T0qu36s4Z/Y=";
+    })
+    (fetchpatch {
+      name = "0001-Do-not-try-to-copy-pybind11_abseil-status-extension-.patch";
+      url = "https://build.opensuse.org/public/source/science/google-or-tools/0001-Do-not-try-to-copy-pybind11_abseil-status-extension-.patch?rev=18";
+      hash = "sha256-vAjxUW1SjHRG2mpyjHjrAkyoix1BnGCxzvFDMzRp3Bk=";
     })
   ];
 
@@ -49,16 +48,12 @@ stdenv.mkDerivation rec {
   # cross-compiling. Instead, just tell it where to find protoc.
   postPatch = ''
     echo "set(PROTOC_PRG $(type -p protoc))" > cmake/host.cmake
-
-    cp -R ${pybind11_protobuf} pybind11_protobuf
-    chmod -R u+w pybind11_protobuf
   '';
 
   cmakeFlags = [
     "-DBUILD_DEPS=OFF"
     "-DBUILD_PYTHON=ON"
     "-DBUILD_pybind11=OFF"
-    "-DBUILD_pybind11_protobuf=ON"
     "-DCMAKE_INSTALL_BINDIR=bin"
     "-DCMAKE_INSTALL_INCLUDEDIR=include"
     "-DCMAKE_INSTALL_LIBDIR=lib"
@@ -95,6 +90,8 @@ stdenv.mkDerivation rec {
     glpk
     python.pkgs.absl-py
     python.pkgs.pybind11
+    python.pkgs.pybind11-abseil
+    python.pkgs.pybind11-protobuf
     python.pkgs.pytest
     python.pkgs.scipy
     python.pkgs.setuptools
@@ -107,20 +104,14 @@ stdenv.mkDerivation rec {
     protobuf
     (python.pkgs.protobuf4.override { protobuf = protobuf; })
     python.pkgs.numpy
+    python.pkgs.pandas
+    python.pkgs.immutabledict
   ];
   nativeCheckInputs = [
     python.pkgs.matplotlib
-    python.pkgs.pandas
     python.pkgs.virtualenv
   ];
 
-  env.NIX_CFLAGS_COMPILE = toString [
-    # fatal error: 'python/google/protobuf/proto_api.h' file not found
-    "-I${protobuf.src}"
-    # fatal error: 'pybind11_protobuf/native_proto_caster.h' file not found
-    "-I${pybind11_protobuf}"
-  ];
-
   # some tests fail on linux and hang on darwin
   doCheck = false;
 
@@ -149,7 +140,7 @@ stdenv.mkDerivation rec {
     description = ''
       Google's software suite for combinatorial optimization.
     '';
-    mainProgram = "fzn-ortools";
+    mainProgram = "fzn-cp-sat";
     maintainers = with maintainers; [ andersk ];
     platforms = with platforms; linux ++ darwin;
   };
diff --git a/pkgs/development/libraries/science/math/or-tools/offline.patch b/pkgs/development/libraries/science/math/or-tools/offline.patch
deleted file mode 100644
index 1a2a4dbe3631..000000000000
--- a/pkgs/development/libraries/science/math/or-tools/offline.patch
+++ /dev/null
@@ -1,16 +0,0 @@
-diff --git a/cmake/dependencies/CMakeLists.txt b/cmake/dependencies/CMakeLists.txt
-index af3a28c113..ba92c3c55e 100644
---- a/cmake/dependencies/CMakeLists.txt
-+++ b/cmake/dependencies/CMakeLists.txt
-@@ -177,9 +177,8 @@ if(BUILD_PYTHON AND BUILD_pybind11_protobuf)
-   list(APPEND CMAKE_MESSAGE_INDENT "  ")
-   FetchContent_Declare(
-     pybind11_protobuf
--    GIT_REPOSITORY "https://github.com/pybind/pybind11_protobuf.git"
--    GIT_TAG "main"
--    PATCH_COMMAND git apply --ignore-whitespace "${CMAKE_CURRENT_LIST_DIR}/../../patches/pybind11_protobuf.patch"
-+    SOURCE_DIR @pybind11_protobuf@
-+    PATCH_COMMAND patch -p1 < "${CMAKE_CURRENT_LIST_DIR}/../../patches/pybind11_protobuf.patch"
-   )
-   FetchContent_MakeAvailable(pybind11_protobuf)
-   list(POP_BACK CMAKE_MESSAGE_INDENT)
diff --git a/pkgs/top-level/all-packages.nix b/pkgs/top-level/all-packages.nix
index 093dff485087..dffb731ff43f 100644
--- a/pkgs/top-level/all-packages.nix
+++ b/pkgs/top-level/all-packages.nix
@@ -16814,14 +16814,15 @@ with pkgs;
 
   or-tools = callPackage ../development/libraries/science/math/or-tools {
     inherit (darwin) DarwinTools;
-    stdenv = if stdenv.hostPlatform.isDarwin then overrideSDK stdenv "11.0" else stdenv;
     python = python3;
-    protobuf = protobuf_23;
-    # or-tools builds with -std=c++20, so abseil-cpp must
+    protobuf = protobuf_25.override {
+      abseil-cpp = abseil-cpp_202401;
+    };
+    # or-tools builds with -std=c++17, so abseil-cpp must
     # also be built that way
-    abseil-cpp = abseil-cpp_202301.override {
+    abseil-cpp = abseil-cpp_202401.override {
       static = true;
-      cxxStandard = "20";
+      cxxStandard = "17";
     };
   };