diff --git a/Source/Core/VideoCommon/FramebufferShaderGen.cpp b/Source/Core/VideoCommon/FramebufferShaderGen.cpp
index de7bdf3ee8..c69f07c10d 100644
--- a/Source/Core/VideoCommon/FramebufferShaderGen.cpp
+++ b/Source/Core/VideoCommon/FramebufferShaderGen.cpp
@@ -104,10 +104,23 @@ static void EmitVertexMainDeclaration(std::stringstream& ss, u32 num_tex_inputs,
          << ";\n";
     if (position_input)
       ss << "ATTRIBUTE_LOCATION(" << SHADER_POSITION_ATTRIB << ") in float4 rawpos;\n";
-    for (u32 i = 0; i < num_tex_outputs; i++)
-      ss << "VARYING_LOCATION(" << i << ") out float3 v_tex" << i << ";\n";
-    for (u32 i = 0; i < num_color_outputs; i++)
-      ss << "VARYING_LOCATION(" << (num_tex_inputs + i) << ") out float4 v_col" << i << ";\n";
+
+    if (g_ActiveConfig.backend_info.bSupportsGeometryShaders)
+    {
+      ss << "VARYING_LOCATION(0) out VertexData {\n";
+      for (u32 i = 0; i < num_tex_outputs; i++)
+        ss << "  float3 v_tex" << i << ";\n";
+      for (u32 i = 0; i < num_color_outputs; i++)
+        ss << "  float4 v_col" << i << ";\n";
+      ss << "};\n";
+    }
+    else
+    {
+      for (u32 i = 0; i < num_tex_outputs; i++)
+        ss << "VARYING_LOCATION(" << i << ") out float3 v_tex" << i << ";\n";
+      for (u32 i = 0; i < num_color_outputs; i++)
+        ss << "VARYING_LOCATION(" << (num_tex_inputs + i) << ") out float4 v_col" << i << ";\n";
+    }
     ss << "#define opos gl_Position\n";
     ss << extra_inputs << "\n";
     ss << "void main()\n";
@@ -138,10 +151,23 @@ static void EmitPixelMainDeclaration(std::stringstream& ss, u32 num_tex_inputs,
   case APIType::OpenGL:
   case APIType::Vulkan:
   {
-    for (u32 i = 0; i < num_tex_inputs; i++)
-      ss << "VARYING_LOCATION(" << i << ") in float3 v_tex" << i << ";\n";
-    for (u32 i = 0; i < num_color_inputs; i++)
-      ss << "VARYING_LOCATION(" << (num_tex_inputs + i) << ") in float4 v_col" << i << ";\n";
+    if (g_ActiveConfig.backend_info.bSupportsGeometryShaders)
+    {
+      ss << "VARYING_LOCATION(0) in VertexData {\n";
+      for (u32 i = 0; i < num_tex_inputs; i++)
+        ss << "  in float3 v_tex" << i << ";\n";
+      for (u32 i = 0; i < num_color_inputs; i++)
+        ss << "  in float4 v_col" << i << ";\n";
+      ss << "};\n";
+    }
+    else
+    {
+      for (u32 i = 0; i < num_tex_inputs; i++)
+        ss << "VARYING_LOCATION(" << i << ") in float3 v_tex" << i << ";\n";
+      for (u32 i = 0; i < num_color_inputs; i++)
+        ss << "VARYING_LOCATION(" << (num_tex_inputs + i) << ") in float4 v_col" << i << ";\n";
+    }
+
     ss << "FRAGMENT_OUTPUT_LOCATION(0) out " << output_type << " ocol0;\n";
     ss << extra_vars << "\n";
     ss << "void main()\n";
@@ -218,15 +244,20 @@ std::string GeneratePassthroughGeometryShader(u32 num_tex, u32 num_colors)
   {
     ss << "layout(triangles) in;\n";
     ss << "layout(triangle_strip, max_vertices = 6) out;\n";
-    for (u32 i = 0; i < num_tex; i++)
+    if (num_tex > 0 || num_colors > 0)
     {
-      ss << "layout(location = " << i << ") in float3 v_tex" << i << "[];\n";
-      ss << "layout(location = " << i << ") out float3 out_tex" << i << ";\n";
-    }
-    for (u32 i = 0; i < num_colors; i++)
-    {
-      ss << "layout(location = " << (num_tex + i) << ") in float4 v_col" << i << "[];\n";
-      ss << "layout(location = " << (num_tex + i) << ") out float4 out_col" << i << ";\n";
+      ss << "VARYING_LOCATION(0) in VertexData {\n";
+      for (u32 i = 0; i < num_tex; i++)
+        ss << "  float3 v_tex" << i << ";\n";
+      for (u32 i = 0; i < num_colors; i++)
+        ss << "  float4 v_col" << i << ";\n";
+      ss << "} v_in[];\n";
+      ss << "VARYING_LOCATION(0) out VertexData {\n";
+      for (u32 i = 0; i < num_tex; i++)
+        ss << "  float3 v_tex" << i << ";\n";
+      for (u32 i = 0; i < num_colors; i++)
+        ss << "  float4 v_col" << i << ";\n";
+      ss << "} v_out;\n";
     }
     ss << "\n";
     ss << "void main()\n";
@@ -240,9 +271,10 @@ std::string GeneratePassthroughGeometryShader(u32 num_tex, u32 num_colors)
     {
       ss << "    gl_Position = gl_in[" << v << "].gl_Position;\n";
       for (u32 i = 0; i < num_tex; i++)
-        ss << "    out_tex" << i << " = float3(v_tex" << i << "[" << v << "].xy, float(j));\n";
+        ss << "    v_out.v_tex" << i << " = float3(v_in[" << v << "].v_tex" << i
+           << ".xy, float(j));\n";
       for (u32 i = 0; i < num_colors; i++)
-        ss << "    out_col" << i << " = v_col" << i << "[" << v << "];\n";
+        ss << "    v_out.v_col" << i << " = v_in[" << v << "].v_col" << i << ";\n";
       ss << "    EmitVertex();\n\n";
     }
     ss << "    EndPrimitive();\n";
diff --git a/Source/Core/VideoCommon/TextureConversionShader.cpp b/Source/Core/VideoCommon/TextureConversionShader.cpp
index 29c7cccc1b..69a42e26d5 100644
--- a/Source/Core/VideoCommon/TextureConversionShader.cpp
+++ b/Source/Core/VideoCommon/TextureConversionShader.cpp
@@ -72,7 +72,16 @@ static void WriteHeader(char*& p, APIType ApiType)
     WRITE(p, "  float2 clamp_tb;\n");
     WRITE(p, "  float3 filter_coefficients;\n");
     WRITE(p, "};\n");
-    WRITE(p, "VARYING_LOCATION(0) in float3 v_tex0;\n");
+    if (g_ActiveConfig.backend_info.bSupportsGeometryShaders)
+    {
+      WRITE(p, "VARYING_LOCATION(0) in VertexData {\n");
+      WRITE(p, "  float3 v_tex0;\n");
+      WRITE(p, "};\n");
+    }
+    else
+    {
+      WRITE(p, "VARYING_LOCATION(0) in float3 v_tex0;\n");
+    }
     WRITE(p, "SAMPLER_BINDING(0) uniform sampler2DArray samp0;\n");
     WRITE(p, "FRAGMENT_OUTPUT_LOCATION(0) out float4 ocol0;\n");
   }
@@ -1510,7 +1519,16 @@ float4 DecodePixel(int val)
   }
   else
   {
-    ss << "VARYING_LOCATION(0) in float3 v_tex0;\n";
+    if (g_ActiveConfig.backend_info.bSupportsGeometryShaders)
+    {
+      ss << "VARYING_LOCATION(0) in VertexData {\n";
+      ss << "  float3 v_tex0;\n";
+      ss << "};\n";
+    }
+    else
+    {
+      ss << "VARYING_LOCATION(0) in float3 v_tex0;\n";
+    }
     ss << "FRAGMENT_OUTPUT_LOCATION(0) out float4 ocol0;\n";
     ss << "void main() {\n";
     ss << "  float3 coords = v_tex0;\n";
diff --git a/Source/Core/VideoCommon/TextureConverterShaderGen.cpp b/Source/Core/VideoCommon/TextureConverterShaderGen.cpp
index 15de7ba9a7..df46254d91 100644
--- a/Source/Core/VideoCommon/TextureConverterShaderGen.cpp
+++ b/Source/Core/VideoCommon/TextureConverterShaderGen.cpp
@@ -67,8 +67,17 @@ ShaderCode GenerateVertexShader(APIType api_type)
   }
   else if (api_type == APIType::OpenGL || api_type == APIType::Vulkan)
   {
-    out.Write("VARYING_LOCATION(0) out float3 v_tex0;\n"
-              "#define id gl_VertexID\n"
+    if (g_ActiveConfig.backend_info.bSupportsGeometryShaders)
+    {
+      out.Write("VARYING_LOCATION(0) out VertexData {\n");
+      out.Write("  float3 v_tex0;\n");
+      out.Write("};\n");
+    }
+    else
+    {
+      out.Write("VARYING_LOCATION(0) out float3 v_tex0;\n");
+    }
+    out.Write("#define id gl_VertexID\n"
               "#define opos gl_Position\n"
               "void main() {\n");
   }
@@ -112,8 +121,17 @@ ShaderCode GeneratePixelShader(APIType api_type, const UidData* uid_data)
               "clamp_tb.x, clamp_tb.y), %s));\n"
               "}\n",
               mono_depth ? "0.0" : "uv.z");
-    out.Write("VARYING_LOCATION(0) in vec3 v_tex0;\n"
-              "FRAGMENT_OUTPUT_LOCATION(0) out vec4 ocol0;"
+    if (g_ActiveConfig.backend_info.bSupportsGeometryShaders)
+    {
+      out.Write("VARYING_LOCATION(0) in VertexData {\n");
+      out.Write("  float3 v_tex0;\n");
+      out.Write("};\n");
+    }
+    else
+    {
+      out.Write("VARYING_LOCATION(0) in vec3 v_tex0;\n");
+    }
+    out.Write("FRAGMENT_OUTPUT_LOCATION(0) out vec4 ocol0;"
               "void main()\n{\n");
   }