diff --git a/VERSION_NUMBER b/VERSION_NUMBER
index 0d91a54c7d..9e11b32fca 100644
--- a/VERSION_NUMBER
+++ b/VERSION_NUMBER
@@ -1 +1 @@
-0.3.0
+0.3.1
diff --git a/docs/Versioning.md b/docs/Versioning.md
index b56c2043b3..9e1c04f4cf 100644
--- a/docs/Versioning.md
+++ b/docs/Versioning.md
@@ -30,6 +30,7 @@ opset version implemented in that release.
 
 | ONNX Runtime release version | ONNX opset version <br> implemented in this release | ONNX ML opset version <br> implemented in this release | Supported ONNX IR version |
 |------------------------------|--------------------|----------------------|------------------|
+| 0.3.1 | 9 | 1 | 3 |
 | 0.3.0 | 9 | 1 | 3 |
 | 0.2.1 | 8 | 1 | 3 |
 | 0.2.0 | 8 | 1 | 3 |
diff --git a/docs/python/README.rst b/docs/python/README.rst
index 1073e8976d..5b91cbf80d 100644
--- a/docs/python/README.rst
+++ b/docs/python/README.rst
@@ -52,6 +52,11 @@ replaces *scikit-learn* to compute the predictions.
 Changes
 -------
 
+0.3.1
+^^^^^
+
+Protobuf-lite, NuGet file fixes (patch to 0.3.0).
+
 0.3.0
 ^^^^^
 
diff --git a/onnxruntime/__init__.py b/onnxruntime/__init__.py
index 4b64050341..8cffb2665a 100644
--- a/onnxruntime/__init__.py
+++ b/onnxruntime/__init__.py
@@ -12,7 +12,7 @@ community, it supports traditional ML models as well
 as Deep Learning algorithms in the
 `ONNX-ML format <https://github.com/onnx/onnx/blob/master/docs/IR.md>`_.
 """
-__version__ = "0.3.0"
+__version__ = "0.3.1"
 __author__ = "Microsoft"
 
 from onnxruntime.capi import onnxruntime_validation
diff --git a/package/rpm/onnxruntime.spec b/package/rpm/onnxruntime.spec
index d6b7e5baf7..2d25cc7d84 100644
--- a/package/rpm/onnxruntime.spec
+++ b/package/rpm/onnxruntime.spec
@@ -1,5 +1,5 @@
 Name:           onnxruntime
-Version:        0.3.0
+Version:        0.3.1
 Release:        1%{?dist}
 Summary:        onnxruntime