diff --git a/Source/Core/VideoBackends/D3D/PerfQuery.cpp b/Source/Core/VideoBackends/D3D/PerfQuery.cpp
index 2eb3c6d89d..15574a9c76 100644
--- a/Source/Core/VideoBackends/D3D/PerfQuery.cpp
+++ b/Source/Core/VideoBackends/D3D/PerfQuery.cpp
@@ -86,7 +86,7 @@ u32 PerfQuery::GetQueryResult(PerfQueryType type)
   else if (type == PQ_EFB_COPY_CLOCKS)
     result = m_results[PQG_EFB_COPY_CLOCKS];
 
-  return result / 4;
+  return result;
 }
 
 void PerfQuery::FlushOne()
@@ -102,6 +102,8 @@ void PerfQuery::FlushOne()
   }
 
   // NOTE: Reported pixel metrics should be referenced to native resolution
+  // TODO: Dropping the lower 2 bits from this count should be closer to actual
+  // hardware behavior when drawing triangles.
   m_results[entry.query_type] += (u32)(result * EFB_WIDTH / g_renderer->GetTargetWidth() *
                                        EFB_HEIGHT / g_renderer->GetTargetHeight());
 
diff --git a/Source/Core/VideoBackends/D3D12/PerfQuery.cpp b/Source/Core/VideoBackends/D3D12/PerfQuery.cpp
index 4794b134c1..df5b5ce224 100644
--- a/Source/Core/VideoBackends/D3D12/PerfQuery.cpp
+++ b/Source/Core/VideoBackends/D3D12/PerfQuery.cpp
@@ -98,7 +98,7 @@ u32 PerfQuery::GetQueryResult(PerfQueryType type)
   else if (type == PQ_EFB_COPY_CLOCKS)
     result = m_results[PQG_EFB_COPY_CLOCKS];
 
-  return result / 4;
+  return result;
 }
 
 void PerfQuery::FlushOne()
@@ -126,6 +126,8 @@ void PerfQuery::FlushOne()
   m_query_readback_buffer->Unmap(0, &write_range);
 
   // NOTE: Reported pixel metrics should be referenced to native resolution
+  // TODO: Dropping the lower 2 bits from this count should be closer to actual
+  // hardware behavior when drawing triangles.
   m_results[entry.query_type] += (u32)(result * EFB_WIDTH / g_renderer->GetTargetWidth() *
                                        EFB_HEIGHT / g_renderer->GetTargetHeight());
 
@@ -179,6 +181,8 @@ void PerfQuery::FlushResults()
            sizeof(UINT64));
 
     // NOTE: Reported pixel metrics should be referenced to native resolution
+    // TODO: Dropping the lower 2 bits from this count should be closer to actual
+    // hardware behavior when drawing triangles.
     m_results[entry.query_type] += (u32)(result * EFB_WIDTH / g_renderer->GetTargetWidth() *
                                          EFB_HEIGHT / g_renderer->GetTargetHeight());
 
diff --git a/Source/Core/VideoBackends/OGL/PerfQuery.cpp b/Source/Core/VideoBackends/OGL/PerfQuery.cpp
index cbe4ff7056..b3b5df2265 100644
--- a/Source/Core/VideoBackends/OGL/PerfQuery.cpp
+++ b/Source/Core/VideoBackends/OGL/PerfQuery.cpp
@@ -11,6 +11,7 @@
 
 #include "VideoBackends/OGL/PerfQuery.h"
 #include "VideoCommon/RenderBase.h"
+#include "VideoCommon/VideoConfig.h"
 
 namespace OGL
 {
@@ -79,7 +80,7 @@ u32 PerfQuery::GetQueryResult(PerfQueryType type)
     result = m_results[PQG_EFB_COPY_CLOCKS];
   }
 
-  return result / 4;
+  return result;
 }
 
 // Implementations
@@ -155,8 +156,16 @@ void PerfQueryGL::FlushOne()
   glGetQueryObjectuiv(entry.query_id, GL_QUERY_RESULT, &result);
 
   // NOTE: Reported pixel metrics should be referenced to native resolution
-  m_results[entry.query_type] += (u64)result * EFB_WIDTH / g_renderer->GetTargetWidth() *
-                                 EFB_HEIGHT / g_renderer->GetTargetHeight();
+  // TODO: Dropping the lower 2 bits from this count should be closer to actual
+  // hardware behavior when drawing triangles.
+  result = static_cast<u64>(result) * EFB_WIDTH * EFB_HEIGHT /
+           (g_renderer->GetTargetWidth() * g_renderer->GetTargetHeight());
+
+  // Adjust for multisampling
+  if (g_ActiveConfig.iMultisamples > 1)
+    result /= g_ActiveConfig.iMultisamples;
+
+  m_results[entry.query_type] += result;
 
   m_query_read_pos = (m_query_read_pos + 1) % m_query_buffer.size();
   --m_query_count;
@@ -241,8 +250,10 @@ void PerfQueryGLESNV::FlushOne()
   glGetOcclusionQueryuivNV(entry.query_id, GL_OCCLUSION_TEST_RESULT_HP, &result);
 
   // NOTE: Reported pixel metrics should be referenced to native resolution
-  m_results[entry.query_type] += (u64)result * EFB_WIDTH / g_renderer->GetTargetWidth() *
-                                 EFB_HEIGHT / g_renderer->GetTargetHeight();
+  // TODO: Dropping the lower 2 bits from this count should be closer to actual
+  // hardware behavior when drawing triangles.
+  m_results[entry.query_type] += static_cast<u64>(result) * EFB_WIDTH * EFB_HEIGHT /
+                                 (g_renderer->GetTargetWidth() * g_renderer->GetTargetHeight());
 
   m_query_read_pos = (m_query_read_pos + 1) % m_query_buffer.size();
   --m_query_count;