diff --git a/pkgs/applications/editors/vscode/extensions/Google.gemini-cli-vscode-ide-companion/default.nix b/pkgs/applications/editors/vscode/extensions/Google.gemini-cli-vscode-ide-companion/default.nix
index 87125c0ed7cb..d78d9bf22ca3 100644
--- a/pkgs/applications/editors/vscode/extensions/Google.gemini-cli-vscode-ide-companion/default.nix
+++ b/pkgs/applications/editors/vscode/extensions/Google.gemini-cli-vscode-ide-companion/default.nix
@@ -19,6 +19,8 @@ vscode-utils.buildVscodeExtension (finalAttrs: {
     installPhase = ''
       runHook preInstall
 
+      patchShebangs .
+
       npm --workspace=gemini-cli-vscode-ide-companion run prepackage
 
       # the bundled vsce is broken, using our packaged version
diff --git a/pkgs/by-name/ge/gemini-cli/package.nix b/pkgs/by-name/ge/gemini-cli/package.nix
index 43f9e5ab6d0a..440462e68e9b 100644
--- a/pkgs/by-name/ge/gemini-cli/package.nix
+++ b/pkgs/by-name/ge/gemini-cli/package.nix
@@ -15,18 +15,18 @@
 
 buildNpmPackage (finalAttrs: {
   pname = "gemini-cli";
-  version = "0.38.2";
+  version = "0.40.1";
 
   src = fetchFromGitHub {
     owner = "google-gemini";
     repo = "gemini-cli";
     tag = "v${finalAttrs.version}";
-    hash = "sha256-DPJMpm+hOQQxG87/NyrCrlomeR4AD1WNfNoIsdaakaE=";
+    hash = "sha256-oWznf9xleb9bpW2dnMIUehkMqKCb6AecZjcVwZgBrdo=";
   };
 
   nodejs = nodejs_22;
 
-  npmDepsHash = "sha256-6UnLSmKdnXwEXgGcyRTibDkEqvlRr75e3fRld0v6T2s=";
+  npmDepsHash = "sha256-sscqcey+hPsfajrTspy6FScjfFmtvJMP1w56cFuu3DI=";
 
   dontPatchElf = stdenv.isDarwin;