diff --git a/tools/ci_build/github/azure-pipelines/custom-nuget-packaging-pipeline.yml b/tools/ci_build/github/azure-pipelines/custom-nuget-packaging-pipeline.yml
index 1ad6f411d9848..2ee41142d0c62 100644
--- a/tools/ci_build/github/azure-pipelines/custom-nuget-packaging-pipeline.yml
+++ b/tools/ci_build/github/azure-pipelines/custom-nuget-packaging-pipeline.yml
@@ -122,6 +122,7 @@ extends:
           build_config: 'RelWithDebInfo'
           PublishArchive: true
           PublishNugetToFeed: false
+          UseWebGPU: true
 
       - template: templates/mac-cpu-packaging-pipeline.yml
         parameters:
diff --git a/tools/ci_build/github/azure-pipelines/templates/jobs/download_win_webgpu_build_tools.yml b/tools/ci_build/github/azure-pipelines/templates/jobs/download_win_webgpu_build_tools.yml
new file mode 100644
index 0000000000000..0074663093f10
--- /dev/null
+++ b/tools/ci_build/github/azure-pipelines/templates/jobs/download_win_webgpu_build_tools.yml
@@ -0,0 +1,20 @@
+steps:
+  - powershell: |
+      azcopy.exe cp --recursive https://lotusscus.blob.core.windows.net/models/webgpu-build-tools $(Agent.TempDirectory)
+    displayName: 'Download WebGPU build tools'
+
+  - powershell: |
+      echo "##vso[task.setvariable variable=WebGPUBuildToolsDir]$(Agent.TempDirectory)\webgpu-build-tools"
+    displayName: Set WebGPUBuildToolsDir
+
+  - task: CmdLine@2
+    inputs:
+      script: |
+        echo $(WebGPUBuildToolsDir)
+    displayName: 'Print WebGPUBuildToolsDir after downloading WebGPU build tools'
+
+  - task: CmdLine@2
+    displayName: 'Print contents of WebGPU build tools'
+    inputs:
+      script: |
+        dir $(WebGPUBuildToolsDir)
diff --git a/tools/ci_build/github/azure-pipelines/templates/qnn-ep-win.yml b/tools/ci_build/github/azure-pipelines/templates/qnn-ep-win.yml
index 2221c93ecc5d0..19d2ce9182679 100644
--- a/tools/ci_build/github/azure-pipelines/templates/qnn-ep-win.yml
+++ b/tools/ci_build/github/azure-pipelines/templates/qnn-ep-win.yml
@@ -8,6 +8,8 @@ parameters:
   StageName: 'OnnxRuntime_QNN_Nuget_Win_x64'
   PublishArchive: false
   PublishNugetToFeed: true
+  UseWebGPU: false
+  ExtraBuildArgs: ''
 
 stages:
 - stage: ${{ parameters.StageName }}
@@ -48,6 +50,7 @@ stages:
       OrtPackageId: ${{ parameters.OrtNugetPackageId }}
       ReleaseVersionSuffix: $[stageDependencies.Setup.Set_Variables.outputs['Set_Release_Version_Suffix.ReleaseVersionSuffix']]
       commonBuildArgs: '--skip_submodule_sync --build_shared_lib --client_package_build --cmake_generator "Visual Studio 17 2022" --config ${{ parameters.build_config }} --parallel --use_vcpkg --use_vcpkg_ms_internal_asset_cache --use_binskim_compliant_compile_flags '
+      WebGPUBuildFlags: ''
 
     steps:
     - template: set-version-number-variables-step.yml
@@ -56,6 +59,13 @@ stages:
       parameters:
         host_cpu_arch: 'x64'
 
+    - ${{ if eq(parameters.UseWebGPU, true) }}:
+      - template: jobs/download_win_webgpu_build_tools.yml
+
+      - powershell: |
+          echo "##vso[task.setvariable variable=WebGPUBuildFlags] --use_webgpu --cmake_extra_defines LLVM_TABLEGEN=$(WebGPUBuildToolsDir)\llvm-tblgen.exe CLANG_TABLEGEN=$(WebGPUBuildToolsDir)\clang-tblgen.exe"
+        displayName: Set Additional Build Flags for WebGPU
+
     - template: jobs/download_win_qnn_sdk.yml
       parameters:
         QnnSDKVersion: ${{ parameters.QnnSdk }}
@@ -64,13 +74,13 @@ stages:
       displayName: 'Build arm64x project - generate the def & lib file for next build'
       inputs:
         scriptPath: '$(Build.SourcesDirectory)\tools\ci_build\build.py'
-        arguments: ' --arm64 --buildasx --build_dir $(Build.BinariesDirectory)\arm64x --use_qnn --qnn_home $(QnnSDKRootDir) $(commonBuildArgs)'
-        
+        arguments: ' --arm64 --buildasx --build_dir $(Build.BinariesDirectory)\arm64x --use_qnn --qnn_home $(QnnSDKRootDir) $(commonBuildArgs) $(WebGPUBuildFlags)'
+
     - task: PythonScript@0
       displayName: 'Build arm64ecx project - the real arm64x'
       inputs:
         scriptPath: '$(Build.SourcesDirectory)\tools\ci_build\build.py'
-        arguments: ' --arm64ec --buildasx --build_dir $(Build.BinariesDirectory) --use_qnn --qnn_home $(QnnSDKRootDir) $(commonBuildArgs)'
+        arguments: ' --arm64ec --buildasx --build_dir $(Build.BinariesDirectory) --use_qnn --qnn_home $(QnnSDKRootDir) $(commonBuildArgs) $(WebGPUBuildFlags)'
 
     - task: CmdLine@2
       displayName: 'Print contents of binaries directory'