diff --git a/pkgs/development/tools/kustomize/default.nix b/pkgs/development/tools/kustomize/default.nix
index 07d2357a50b6..e60181e9bc4c 100644
--- a/pkgs/development/tools/kustomize/default.nix
+++ b/pkgs/development/tools/kustomize/default.nix
@@ -1,29 +1,29 @@
-{ lib, buildGoModule, fetchFromGitHub }:
+{ lib, buildGoModule, fetchFromGitHub, tree }:
 
 buildGoModule rec {
   pname = "kustomize";
-  version = "3.1.0";
-  # rev is the 3.1.0 commit, mainly for kustomize version command output
-  rev = "95f3303493fdea243ae83b767978092396169baf";
+  version = "3.3.1";
+  # rev is the 3.3.1 commit, mainly for kustomize version command output
+  rev = "f2ac5a2d0df13c047fb20cbc12ef1a3b41ce2dad";
 
-  goPackagePath = "sigs.k8s.io/kustomize";
-  subPackages = [ "cmd/kustomize" ];
-
-  buildFlagsArray = let t = "${goPackagePath}/v3/pkg/commands/misc"; in ''
+  buildFlagsArray = let t = "sigs.k8s.io/kustomize/v3/provenance"; in ''
     -ldflags=
-      -s -X ${t}.kustomizeVersion=${version}
+      -s -X ${t}.version=${version}
          -X ${t}.gitCommit=${rev}
          -X ${t}.buildDate=unknown
   '';
 
   src = fetchFromGitHub {
-    sha256 = "0kigcirkjvnj3xi1p28p9yp3s0lff24q5qcvf8ahjwvpbwka14sh";
-    rev = "v${version}";
-    repo = pname;
     owner = "kubernetes-sigs";
+    repo = pname;
+    rev = "v${version}";
+    sha256 = "0yxxz0b56r18w178y32s619zy8ci6l93c6vlzx11hhxhbw43f6v6";
   };
 
-  modSha256 = "0w8sp73pmj2wqrg7x7z8diglyfq6c6gn9mmck0k1gk90nv7s8rf1";
+  # avoid finding test and development commands
+  sourceRoot = "source/kustomize";
+
+  modSha256 = "1bas6al14ck0d2ccb4235426a5hldqsm0nf8vi76chz4nahzb71g";
 
   meta = with lib; {
     description = "Customization of kubernetes YAML configurations";