diff --git a/doc/languages-frameworks/python.section.md b/doc/languages-frameworks/python.section.md
index bbc5da116a6a..acbfb306b4ff 100644
--- a/doc/languages-frameworks/python.section.md
+++ b/doc/languages-frameworks/python.section.md
@@ -50,7 +50,6 @@ sets are
 
 * `pkgs.python27Packages`
 * `pkgs.python3Packages`
-* `pkgs.python39Packages`
 * `pkgs.python310Packages`
 * `pkgs.python311Packages`
 * `pkgs.python312Packages`
diff --git a/pkgs/development/interpreters/python/cpython/default.nix b/pkgs/development/interpreters/python/cpython/default.nix
index 4072c31dc296..b33dc33b5df8 100644
--- a/pkgs/development/interpreters/python/cpython/default.nix
+++ b/pkgs/development/interpreters/python/cpython/default.nix
@@ -309,14 +309,9 @@ stdenv.mkDerivation (finalAttrs: {
     ]
     ++ buildInputs;
 
-  prePatch =
-    optionalString stdenv.hostPlatform.isDarwin ''
-      substituteInPlace configure --replace-fail '`/usr/bin/arch`' '"i386"'
-    ''
-    + optionalString (pythonOlder "3.9" && stdenv.hostPlatform.isDarwin && x11Support) ''
-      # Broken on >= 3.9; replaced with ./3.9/darwin-tcl-tk.patch
-      substituteInPlace setup.py --replace-fail /Library/Frameworks /no-such-path
-    '';
+  prePatch = optionalString stdenv.hostPlatform.isDarwin ''
+    substituteInPlace configure --replace-fail '`/usr/bin/arch`' '"i386"'
+  '';
 
   patches =
     [
@@ -772,14 +767,6 @@ stdenv.mkDerivation (finalAttrs: {
       inherit src;
       name = "python${pythonVersion}-${version}-doc";
 
-      patches = optionals (pythonAtLeast "3.9" && pythonOlder "3.10") [
-        # https://github.com/python/cpython/issues/98366
-        (fetchpatch {
-          url = "https://github.com/python/cpython/commit/5612471501b05518287ed61c1abcb9ed38c03942.patch";
-          hash = "sha256-p41hJwAiyRgyVjCVQokMSpSFg/VDDrqkCSxsodVb6vY=";
-        })
-      ];
-
       postPatch = lib.optionalString (pythonAtLeast "3.9" && pythonOlder "3.11") ''
         substituteInPlace Doc/tools/extensions/pyspecific.py \
           --replace-fail "from sphinx.util import status_iterator" "from sphinx.util.display import status_iterator"
diff --git a/pkgs/development/interpreters/python/default.nix b/pkgs/development/interpreters/python/default.nix
index b16381009828..580f3db89968 100644
--- a/pkgs/development/interpreters/python/default.nix
+++ b/pkgs/development/interpreters/python/default.nix
@@ -44,18 +44,6 @@
       inherit passthruFun;
     };
 
-    python39 = callPackage ./cpython {
-      self = __splicedPackages.python39;
-      sourceVersion = {
-        major = "3";
-        minor = "9";
-        patch = "21";
-        suffix = "";
-      };
-      hash = "sha256-MSb1lZLJsNeYWEdV8r97CB+hyjXOem/qmAEI11KgW7E=";
-      inherit passthruFun;
-    };
-
     python310 = callPackage ./cpython {
       self = __splicedPackages.python310;
       sourceVersion = {
diff --git a/pkgs/top-level/all-packages.nix b/pkgs/top-level/all-packages.nix
index 9c5a3c202b49..87b60aa85d4a 100644
--- a/pkgs/top-level/all-packages.nix
+++ b/pkgs/top-level/all-packages.nix
@@ -7589,12 +7589,6 @@ with pkgs;
     bluezSupport = lib.meta.availableOn stdenv.hostPlatform bluez;
     x11Support = true;
   };
-  python39Full = python39.override {
-    self = python39Full;
-    pythonAttr = "python39Full";
-    bluezSupport = lib.meta.availableOn stdenv.hostPlatform bluez;
-    x11Support = true;
-  };
   python310Full = python310.override {
     self = python310Full;
     pythonAttr = "python310Full";
@@ -7639,7 +7633,6 @@ with pkgs;
   pythonInterpreters = callPackage ./../development/interpreters/python { };
   inherit (pythonInterpreters)
     python27
-    python39
     python310
     python311
     python312
@@ -7655,7 +7648,6 @@ with pkgs;
 
   # Python package sets.
   python27Packages = python27.pkgs;
-  python39Packages = python39.pkgs;
   python310Packages = python310.pkgs;
   python311Packages = python311.pkgs;
   python312Packages = recurseIntoAttrs python312.pkgs;
diff --git a/pkgs/top-level/python-aliases.nix b/pkgs/top-level/python-aliases.nix
index 7f4ec006185d..d0721da803c3 100644
--- a/pkgs/top-level/python-aliases.nix
+++ b/pkgs/top-level/python-aliases.nix
@@ -38,14 +38,12 @@ mapAliases ({
   python2Packages = throw "do not use python2Packages when building Python packages, specify each used package as a separate argument"; # do not remove
   python27Packages = throw "do not use python27Packages when building Python packages, specify each used package as a separate argument"; # do not remove
   python3Packages = throw "do not use python3Packages when building Python packages, specify each used package as a separate argument"; # do not remove
-  python39Packages = throw "do not use python39Packages when building Python packages, specify each used package as a separate argument"; # do not remove
   python310Packages = throw "do not use python310Packages when building Python packages, specify each used package as a separate argument"; # do not remove
   python311Packages = throw "do not use python311Packages when building Python packages, specify each used package as a separate argument"; # do not remove
   python312Packages = throw "do not use python312Packages when building Python packages, specify each used package as a separate argument"; # do not remove
   python313Packages = throw "do not use python313Packages when building Python packages, specify each used package as a separate argument"; # do not remove
   python2 = throw "do not use python2 when building Python packages, use the generic python parameter instead"; # do not remove
   python3 = throw "do not use python3 when building Python packages, use the generic python parameter instead"; # do not remove
-  python39 = throw "do not use python39 when building Python packages, use the generic python parameter instead"; # do not remove
   python310 = throw "do not use python310 when building Python packages, use the generic python parameter instead"; # do not remove
   python311 = throw "do not use python311 when building Python packages, use the generic python parameter instead"; # do not remove
   python312 = throw "do not use python312 when building Python packages, use the generic python parameter instead"; # do not remove