diff --git a/Source/Core/VideoCommon/PixelShaderGen.cpp b/Source/Core/VideoCommon/PixelShaderGen.cpp
index 990f5f938f..b217e6f176 100644
--- a/Source/Core/VideoCommon/PixelShaderGen.cpp
+++ b/Source/Core/VideoCommon/PixelShaderGen.cpp
@@ -1232,7 +1232,7 @@ static void WriteAlphaTest(ShaderCode& out, const pixel_shader_uid_data* uid_dat
     out.Write(")) {\n");
 
   out.Write("\t\tocol0 = float4(0.0, 0.0, 0.0, 0.0);\n");
-  if (use_dual_source)
+  if (use_dual_source && !(ApiType == APIType::D3D && uid_data->uint_output))
     out.Write("\t\tocol1 = float4(0.0, 0.0, 0.0, 0.0);\n");
   if (per_pixel_depth)
   {