microsoft · titaiwangms · Oct 13, 2025 · Sep 29, 2025 · Sep 30, 2025 · Sep 30, 2025
diff --git a/cmake/deps.txt b/cmake/deps.txt
@@ -34,7 +34,7 @@ microsoft_gsl;https://github.com/microsoft/GSL/archive/refs/tags/v4.0.0.zip;cf36
 microsoft_wil;https://github.com/microsoft/wil/archive/refs/tags/v1.0.230629.1.zip;e4a542a323c070376f7c2d1973d0f7ddbc1d2fa5
 mimalloc;https://github.com/microsoft/mimalloc/archive/refs/tags/v2.1.1.zip;d5ee7d34223d0567892db5179849939c8769dc41
 mp11;https://github.com/boostorg/mp11/archive/refs/tags/boost-1.82.0.zip;9bc9e01dffb64d9e0773b2e44d2f22c51aace063
-onnx;https://github.com/onnx/onnx/archive/refs/tags/v1.19.0.zip;4c798b73e131438c196e6dcb9f3393968a8936f1
+onnx;https://github.com/onnx/onnx/archive/refs/tags/v1.19.1.zip;c5215b5697dcdfd71799f001b8c4054a6bba6b09
 # Use the latest commit of 10.9-GA
 onnx_tensorrt;https://github.com/onnx/onnx-tensorrt/archive/d5dce67db7c2e64b07e055571f5ec06f7f254de2.zip;01114d3b67650857281fa50faa2e412130a63b69
 protobuf;https://github.com/protocolbuffers/protobuf/archive/refs/tags/v21.12.zip;7cf2733949036c7d52fda017badcab093fe73bfa

diff --git a/cmake/external/onnxruntime_external_deps.cmake b/cmake/external/onnxruntime_external_deps.cmake
@@ -498,13 +498,7 @@ else()
 endif()
 
 if(Patch_FOUND)
-  set(ONNXRUNTIME_ONNX_PATCH_COMMAND
-      ${Patch_EXECUTABLE} --binary --ignore-whitespace -p1 < ${PROJECT_SOURCE_DIR}/patches/onnx/onnx.patch &&
-      # Patch changes from https://github.com/onnx/onnx/pull/7253 to avoid unnecessary rebuilding.
-      # This change should be included in ONNX 1.19.1.
-      ${Patch_EXECUTABLE} --binary --ignore-whitespace -p1 <
-          ${PROJECT_SOURCE_DIR}/patches/onnx/avoid_regenerating_proto_files.patch
-      )
+  set(ONNXRUNTIME_ONNX_PATCH_COMMAND ${Patch_EXECUTABLE} --binary --ignore-whitespace -p1 < ${PROJECT_SOURCE_DIR}/patches/onnx/onnx.patch)
 else()
   set(ONNXRUNTIME_ONNX_PATCH_COMMAND "")
 endif()

diff --git a/cmake/patches/onnx/avoid_regenerating_proto_files.patch b/cmake/patches/onnx/avoid_regenerating_proto_files.patch
diff --git a/cmake/patches/onnx/onnx.patch b/cmake/patches/onnx/onnx.patch
@@ -1,5 +1,5 @@
 diff --git a/CMakeLists.txt b/CMakeLists.txt
-index 47995579..6cc439f6 100644
+index cc3ef140..f70312ba 100644
 --- a/CMakeLists.txt
 +++ b/CMakeLists.txt
 @@ -57,6 +57,7 @@ option(ONNX_USE_LITE_PROTO "Use lite protobuf instead of full." OFF)
@@ -10,7 +10,7 @@ index 47995579..6cc439f6 100644
  if(WIN32)
    option(ONNX_USE_MSVC_STATIC_RUNTIME "Build with MSVC static runtime" OFF)
  endif()
-@@ -411,14 +412,28 @@ relative_protobuf_generate_cpp(ONNX_PROTO_SRCS
+@@ -409,14 +410,28 @@ relative_protobuf_generate_cpp(ONNX_PROTO_SRCS
 
  add_library(onnx_proto ${ONNX_PROTO_SRCS})
 
@@ -47,7 +47,7 @@ index 47995579..6cc439f6 100644
 
  # Hide all symbols we don't need
  set_target_properties(onnx_proto PROPERTIES CXX_VISIBILITY_PRESET hidden)
-@@ -440,19 +455,6 @@ add_onnx_global_defines(onnx_proto)
+@@ -438,19 +453,6 @@ add_onnx_global_defines(onnx_proto)
  target_include_directories(onnx_proto PUBLIC
    $<BUILD_INTERFACE:${ONNX_ROOT}>
    $<BUILD_INTERFACE:${CMAKE_CURRENT_BINARY_DIR}>)
@@ -68,10 +68,10 @@ index 47995579..6cc439f6 100644
  if(CMAKE_SYSTEM_NAME STREQUAL "AIX")
    # whole-archive linker option not available on AIX.
 diff --git a/onnx/defs/nn/old.cc b/onnx/defs/nn/old.cc
-index 40635f97..44770774 100644
+index ad6dd0c1..50259f32 100644
 --- a/onnx/defs/nn/old.cc
 +++ b/onnx/defs/nn/old.cc
-@@ -4090,7 +4090,6 @@ ONNX_OPERATOR_SET_SCHEMA(
+@@ -4091,7 +4091,6 @@ ONNX_OPERATOR_SET_SCHEMA(
      GroupNormalization,
      18,
      OpSchema()
@@ -80,7 +80,7 @@ index 40635f97..44770774 100644
          .Attr("epsilon", "The epsilon value to use to avoid division by zero.", AttributeProto::FLOAT, 1e-5f)
          .Attr(
 diff --git a/onnx/defs/schema.h b/onnx/defs/schema.h
-index ddd95454..34647987 100644
+index 7e9bc27f..4b87c5a5 100644
 --- a/onnx/defs/schema.h
 +++ b/onnx/defs/schema.h
 @@ -999,7 +999,7 @@ class OpSchemaRegistry final : public ISchemaRegistry {

diff --git a/cmake/vcpkg-ports/onnx/avoid_regenerating_proto_files.patch b/cmake/vcpkg-ports/onnx/avoid_regenerating_proto_files.patch
diff --git a/cmake/vcpkg-ports/onnx/binskim.patch b/cmake/vcpkg-ports/onnx/binskim.patch
@@ -1,5 +1,5 @@
 diff --git a/CMakeLists.txt b/CMakeLists.txt
-index 47995579..6cc439f6 100644
+index cc3ef140..f70312ba 100644
 --- a/CMakeLists.txt
 +++ b/CMakeLists.txt
 @@ -57,6 +57,7 @@ option(ONNX_USE_LITE_PROTO "Use lite protobuf instead of full." OFF)
@@ -10,7 +10,7 @@ index 47995579..6cc439f6 100644
  if(WIN32)
    option(ONNX_USE_MSVC_STATIC_RUNTIME "Build with MSVC static runtime" OFF)
  endif()
-@@ -411,14 +412,28 @@ relative_protobuf_generate_cpp(ONNX_PROTO_SRCS
+@@ -409,14 +410,28 @@ relative_protobuf_generate_cpp(ONNX_PROTO_SRCS
 
  add_library(onnx_proto ${ONNX_PROTO_SRCS})
 
@@ -47,7 +47,7 @@ index 47995579..6cc439f6 100644
 
  # Hide all symbols we don't need
  set_target_properties(onnx_proto PROPERTIES CXX_VISIBILITY_PRESET hidden)
-@@ -440,19 +455,6 @@ add_onnx_global_defines(onnx_proto)
+@@ -438,19 +453,6 @@ add_onnx_global_defines(onnx_proto)
  target_include_directories(onnx_proto PUBLIC
    $<BUILD_INTERFACE:${ONNX_ROOT}>
    $<BUILD_INTERFACE:${CMAKE_CURRENT_BINARY_DIR}>)
@@ -68,10 +68,10 @@ index 47995579..6cc439f6 100644
  if(CMAKE_SYSTEM_NAME STREQUAL "AIX")
    # whole-archive linker option not available on AIX.
 diff --git a/onnx/defs/nn/old.cc b/onnx/defs/nn/old.cc
-index 40635f97..44770774 100644
+index ad6dd0c1..50259f32 100644
 --- a/onnx/defs/nn/old.cc
 +++ b/onnx/defs/nn/old.cc
-@@ -4090,7 +4090,6 @@ ONNX_OPERATOR_SET_SCHEMA(
+@@ -4091,7 +4091,6 @@ ONNX_OPERATOR_SET_SCHEMA(
      GroupNormalization,
      18,
      OpSchema()
@@ -80,7 +80,7 @@ index 40635f97..44770774 100644
          .Attr("epsilon", "The epsilon value to use to avoid division by zero.", AttributeProto::FLOAT, 1e-5f)
          .Attr(
 diff --git a/onnx/defs/schema.h b/onnx/defs/schema.h
-index ddd95454..34647987 100644
+index 7e9bc27f..4b87c5a5 100644
 --- a/onnx/defs/schema.h
 +++ b/onnx/defs/schema.h
 @@ -999,7 +999,7 @@ class OpSchemaRegistry final : public ISchemaRegistry {

diff --git a/cmake/vcpkg-ports/onnx/portfile.cmake b/cmake/vcpkg-ports/onnx/portfile.cmake
@@ -4,12 +4,9 @@ vcpkg_from_github(
     OUT_SOURCE_PATH SOURCE_PATH
     REPO onnx/onnx
     REF "v${VERSION}"
-    SHA512 e6f7b5782a43a91783607549e4d0f0a9cbd46dfb67a602f81aaffc7bcdd8f450fe9c225f0bc314704f2923e396f0df5b03ea91af4a7887203c0b8372bc2749d0
+    SHA512 cf6ff4c0bb6cc16ce5f4d6267480d35f3c7a5fde94d10e1358928ff6e4ec6d756a7c5d34a500e60bbd8eb1912c8af21aa763719321b330f56a0eb6b9b810ef60
     PATCHES
         fix-cmakelists.patch
-        # Patch changes from https://github.com/onnx/onnx/pull/7253 to avoid unnecessary rebuilding.
-        # This change should be included in ONNX 1.19.1.
-        avoid_regenerating_proto_files.patch
         fix-dependency-protobuf.patch
         binskim.patch
 )

diff --git a/cmake/vcpkg-ports/onnx/vcpkg.json b/cmake/vcpkg-ports/onnx/vcpkg.json
@@ -1,6 +1,6 @@
 {
   "name": "onnx",
-  "version-semver": "1.19.0",
+  "version-semver": "1.19.1",
   "port-version": 1,
   "description": "Open standard for machine learning interoperability",
   "homepage": "https://onnx.ai",

diff --git a/docs/How_To_Update_ONNX_Dev_Notes.md b/docs/How_To_Update_ONNX_Dev_Notes.md
@@ -35,7 +35,7 @@ git add onnx
 1. Modify [cmake/vcpkg-ports/onnx/binskim.patch](/cmake/vcpkg-ports/onnx/binskim.patch) to be the same as [cmake/patches/onnx/onnx.patch](/cmake/patches/onnx/onnx.patch).
 2. The other patches are required/created by vcpkg repository to build ONNX. We just need to re-run diff to makes sure the patches can be applied in the updated ONNX version.
 3. Update [cmake/vcpkg-ports/onnx/portfile.cmake](/cmake/vcpkg-ports/onnx/portfile.cmake) with the correct commit id and SHA512. (alternatively, build it with the wrong SHA and ORT should tell you the expected one.)
-4. Upload your package: [Follow the instructions](https://microsoft.sharepoint.com/teams/ONNX2/_layouts/15/Doc.aspx?sourcedoc={170774be-e1c6-4f8b-a3ae-984f211fe410}&action=edit&wd=target%28Development.)one%7C63d3ab47-51d1-4a62-9965-66882234bd44%2FAdd%20or%20Update%20a%20C%2B%2B%20dependency%7Cb6ae6a97-94fc-4436-8fc6-08c21ae895da%2F%29&wdorigin=NavigationUrl
+4. Upload your package: [Follow the instructions](https://microsoft.sharepoint.com/:o:/r/teams/ONNX2/_layouts/15/Doc.aspx?sourcedoc=%7B170774BE-E1C6-4F8B-A3AE-984F211FE410%7D&wd=target(Development.one%7C63D3AB47-51D1-4A62-9965-66882234BD44%2FUpdate%20a%20VCPKG%20package%7CB6AE6A97-94FC-4436-8FC6-08C21AE895DA%2F)&wdpartid=%7BB5CF19CC-40FE-0EC7-32B6-8119B427B32A%7D%7B1%7D&wdsectionfileid=%7B9DD25660-A195-48EA-B9E0-DF8B902AFDD7%7D&ovuser=72f988bf-86f1-41af-91ab-2d7cd011db47%2Ctitaiwang%40microsoft.com&clickparams=eyJBcHBOYW1lIjoiVGVhbXMtRGVza3RvcCIsIkFwcFZlcnNpb24iOiI0OS8yNTA5MTExNjAxNiIsIkhhc0ZlZGVyYXRlZFVzZXIiOmZhbHNlfQ%3D%3D&CID=fb9dcaa1-c0b5-1000-5597-c19e3adf468c&cidOR=SPO)one%7C63d3ab47-51d1-4a62-9965-66882234bd44%2FAdd%20or%20Update%20a%20C%2B%2B%20dependency%7Cb6ae6a97-94fc-4436-8fc6-08c21ae895da%2F%29&wdorigin=NavigationUrl
 
 Alternatively, directly run Terrapin to upload ONNX package (need SHA512):
 

diff --git a/onnxruntime/test/onnx/TestCase.cc b/onnxruntime/test/onnx/TestCase.cc
@@ -1435,9 +1435,22 @@ std::unique_ptr<std::set<BrokenTest>> GetBrokenTests(const std::string& provider
     broken_tests->insert({"scatter_elements_with_negative_indices", "unknown version"});
     // Fails since ONNX==1.19.0
     broken_tests->insert({"l2normalization_axis_0", "unknown version"});
+    broken_tests->insert({"attention_3d_gqa", "unknown version"});
+    broken_tests->insert({"attention_3d_gqa_attn_mask", "unknown version"});
+    broken_tests->insert({"attention_3d_gqa_causal", "unknown version"});
+    broken_tests->insert({"attention_3d_gqa_scaled", "unknown version"});
+    broken_tests->insert({"attention_3d_gqa_softcap", "unknown version"});
+    broken_tests->insert({"attention_3d_gqa_with_past_and_present", "unknown version"});
+    broken_tests->insert({"attention_4d_gqa", "unknown version"});
+    broken_tests->insert({"attention_4d_gqa_attn_mask", "unknown version"});
+    broken_tests->insert({"attention_4d_gqa_causal", "unknown version"});
+    broken_tests->insert({"attention_4d_gqa_scaled", "unknown version"});
+    broken_tests->insert({"attention_4d_gqa_softcap", "unknown version"});
+    broken_tests->insert({"attention_4d_gqa_with_past_and_present", "unknown version"});
+    broken_tests->insert({"attention_4d_gqa_with_past_and_present_fp16", "unknown version"});
+    broken_tests->insert({"attention_4d_with_past_and_present_qk_matmul_bias_3d_mask_causal", "unknown version"});
+    broken_tests->insert({"attention_4d_with_past_and_present_qk_matmul_bias_4d_mask_causal", "unknown version"});
     broken_tests->insert({"attention_4d_diff_heads_mask4d_padded_kv", "need nonpad_kv_seqlen "});
-    broken_tests->insert({"attention_4d_with_past_and_present_qk_matmul_bias_3d_mask_causal", "attention op implementation is wrong"});
-    broken_tests->insert({"attention_4d_with_past_and_present_qk_matmul_bias_4d_mask_causal", "attention op implementation is wrong"});
   }
 
 #ifdef DISABLE_CONTRIB_OPS

diff --git a/onnxruntime/test/onnx/main.cc b/onnxruntime/test/onnx/main.cc
@@ -795,24 +795,6 @@ select from 'TF8', 'TF16', 'UINT8', 'FLOAT', 'ITENSOR'. \n)");
     // Please make no more changes to the list
     static const ORTCHAR_T* immutable_broken_tests[] =
         {
-            // pending ONNX update
-            ORT_TSTR("attention_3d_gqa"),
-            ORT_TSTR("attention_3d_gqa_attn_mask"),
-            ORT_TSTR("attention_3d_gqa_causal"),
-            ORT_TSTR("attention_3d_gqa_scaled"),
-            ORT_TSTR("attention_3d_gqa_softcap"),
-            ORT_TSTR("attention_3d_gqa_with_past_and_present"),
-            ORT_TSTR("attention_4d_gqa"),
-            ORT_TSTR("attention_4d_gqa_attn_mask"),
-            ORT_TSTR("attention_4d_gqa_causal"),
-            ORT_TSTR("attention_4d_gqa_scaled"),
-            ORT_TSTR("attention_4d_gqa_softcap"),
-            ORT_TSTR("attention_4d_gqa_with_past_and_present"),
-            ORT_TSTR("attention_4d_diff_heads_mask4d_padded_kv"),
-            ORT_TSTR("attention_4d_gqa_with_past_and_present_fp16"),
-            ORT_TSTR("attention_4d_with_past_and_present_qk_matmul_bias_3d_mask_causal"),
-            ORT_TSTR("attention_4d_with_past_and_present_qk_matmul_bias_4d_mask_causal"),
-            // unsupported case
             ORT_TSTR("AvgPool1d"),
             ORT_TSTR("AvgPool1d_stride"),
             ORT_TSTR("AvgPool2d"),

diff --git a/onnxruntime/test/testdata/onnx_backend_test_series_filters.jsonc b/onnxruntime/test/testdata/onnx_backend_test_series_filters.jsonc
@@ -31,23 +31,12 @@
     "current_failing_tests": [
         "^test_adagrad",
         "^test_adagrad_multiple",
-        "^test_attention_4d_diff_heads_mask4d_padded_kv*",  // pending onnx update
-        "^test_attention_3d_gqa*",  // pending onnx update
-        "^test_attention_3d_gqa_causal",  // pending onnx update
-        "^test_attention_3d_gqa_scaled",  // pending onnx update
-        "^test_attention_3d_gqa_softcap",  // pending onnx update
-        "^test_attention_3d_gqa_with_past_and_present",  // pending onnx update
-        "^test_attention_4d_gqa*",  // pending onnx update
-        "^test_attention_4d_gqa_causal",  // pending onnx update
-        "^test_attention_4d_gqa_scaled",  // pending onnx update
-        "^test_attention_4d_gqa_softcap",  // pending onnx update
-        "^test_attention_4d_gqa_with_past_and_present",  // pending onnx update
-        "^test_attention_*causal*",  // pending onnx update
-        "^test_attention_4d_with_past_and_present_qk_matmul_bias_3d_mask_causal*",  // pending onnx update
-        "^test_attention_4d_with_past_and_present_qk_matmul_bias_4d_mask_causal*",  // pending onnx update
-        "^test_attention_4d_attn_mask_3d_causal_expanded*",  // pending onnx update
         "^test_attention_4d_fp16*",  // precision issue: 1 / 192 mismatched elements
         "^test_attention_4d_fp16_expanded*",  // precision issue: 3 / 192 mismatched elements
+        "^test_attention_4d_gqa_with_past_and_present_fp16_expanded*",  // webgpu mismatched elements 38 / 576
+        "^test_attention_4d_with_past_and_present_qk_matmul_bias_3d_mask_causal_expanded*",  // webgpu
+        "^test_attention_4d_attn_mask_3d_causal_expanded*", // webgpu
+        "^test_attention_4d_diff_heads_mask4d_padded_kv*", // Need nonpad_kv_seqlen
         "^test_l2normalization*",  // LpNormalization(22) not implemented
         "^test_l1normalization*",  // LpNormalization(22) not implemented
         "^test_lpnormalization*",  // LpNormalization(22) not implemented
@@ -123,13 +112,9 @@
         "^test_if_opt",
         "^test_loop16_seq_none",
         "^test_identity_opt",
-        // rotary dim should be fixed in onnx==1.19.1
-        "^test_rotary_embedding_no_position_ids_rotary_dim",
-        "^test_rotary_embedding_with_interleaved_rotary_dim",
-        "^test_rotary_embedding_with_rotary_dim",
-        "^test_rotary_embedding_3d_input_expanded",
-        "^test_rotary_embedding_interleaved_expanded",
-        "^test_rotary_embedding_no_position_ids_interleaved_expanded",
+        "^test_rotary_embedding_3d_input_expanded",  // win cuda fail
+        "^test_rotary_embedding_interleaved_expanded",  // win cuda fail
+        "^test_rotary_embedding_no_position_ids_interleaved_expanded",  // win cuda fail
         "^test_rotary_embedding_expanded", //webgpu
         "^test_rotary_embedding_no_position_ids_expanded", //webgpu
         // Following tests are for opset 16 ops and are not yet implemented in ORT

diff --git a/tools/ci_build/github/linux/docker/inference/aarch64/python/cpu/scripts/requirements.txt b/tools/ci_build/github/linux/docker/inference/aarch64/python/cpu/scripts/requirements.txt
@@ -3,7 +3,7 @@ mypy
 pytest
 setuptools>=68.2.2
 wheel
-onnx==1.19.0
+onnx==1.19.1
 protobuf==4.25.8
 sympy==1.14
 flatbuffers
diff --git a/tools/ci_build/github/linux/docker/scripts/lort/requirements.txt b/tools/ci_build/github/linux/docker/scripts/lort/requirements.txt
@@ -3,7 +3,7 @@ beartype==0.15.0
 flatbuffers
 cerberus
 h5py
-onnx==1.19.0
+onnx==1.19.1
 # Python dependencies required for pytorch development
 astunparse
 expecttest!=0.2.0

diff --git a/tools/ci_build/github/linux/docker/scripts/manylinux/requirements.txt b/tools/ci_build/github/linux/docker/scripts/manylinux/requirements.txt
@@ -3,7 +3,7 @@ mypy
 pytest
 setuptools>=68.2.2
 wheel
-onnx==1.19.0
+onnx==1.19.1
 protobuf==4.25.1
 sympy==1.14
 flatbuffers

diff --git a/tools/ci_build/github/linux/docker/scripts/requirements.txt b/tools/ci_build/github/linux/docker/scripts/requirements.txt
@@ -4,7 +4,7 @@ mypy
 pytest
 setuptools==78.1.1
 wheel==0.45.1
-onnx==1.19.0
+onnx==1.19.1
 argparse
 sympy==1.14
 flatbuffers

diff --git a/tools/ci_build/github/linux/python/requirements.txt b/tools/ci_build/github/linux/python/requirements.txt
@@ -3,7 +3,7 @@ mypy
 pytest
 setuptools>=68.2.2
 wheel
-onnx==1.19.0
+onnx==1.19.1
 protobuf==4.25.1
 sympy==1.14
 flatbuffers

diff --git a/tools/ci_build/github/windows/python/requirements.txt b/tools/ci_build/github/windows/python/requirements.txt
@@ -3,7 +3,7 @@ mypy
 pytest
 setuptools>=68.2.2
 wheel
-onnx==1.19.0
+onnx==1.19.1
 protobuf==4.25.1
 sympy==1.14
 flatbuffers