diff --git a/pcsx2-qt/QtHost.cpp b/pcsx2-qt/QtHost.cpp
index 5de21a4879..0483bbbe57 100644
--- a/pcsx2-qt/QtHost.cpp
+++ b/pcsx2-qt/QtHost.cpp
@@ -826,7 +826,7 @@ void EmuThread::redrawDisplayWindow()
 	if (!VMManager::HasValidVM() || VMManager::GetState() == VMState::Running)
 		return;
 
-	GetMTGS().RunOnGSThread([]() { GetMTGS().PresentCurrentFrame(); });
+	GetMTGS().PresentCurrentFrame();
 }
 
 void EmuThread::runOnCPUThread(const std::function<void()>& func)
@@ -979,10 +979,6 @@ void Host::ResizeHostDisplay(u32 new_window_width, u32 new_window_height, float
 {
 	g_host_display->ResizeWindow(new_window_width, new_window_height, new_window_scale);
 	ImGuiManager::WindowResized();
-
-	// if we're paused, re-present the current frame at the new window size.
-	if (VMManager::GetState() == VMState::Paused)
-		GetMTGS().PresentCurrentFrame();
 }
 
 void Host::RequestResizeHostDisplay(s32 width, s32 height)
@@ -994,10 +990,6 @@ void Host::UpdateHostDisplay()
 {
 	g_emu_thread->updateDisplay();
 	ImGuiManager::WindowResized();
-
-	// if we're paused, re-present the current frame at the new window size.
-	if (VMManager::GetState() == VMState::Paused)
-		GetMTGS().PresentCurrentFrame();
 }
 
 void Host::OnVMStarting()
diff --git a/pcsx2/GS.h b/pcsx2/GS.h
index 6b8ede1d51..8b3d2da28d 100644
--- a/pcsx2/GS.h
+++ b/pcsx2/GS.h
@@ -385,7 +385,7 @@ public:
 	void ShutdownThread();
 
 	/// Re-presents the current frame. Call when things like window resizes happen to re-display
-	/// the current frame with the correct proportions. Should only be called on the GS thread.
+	/// the current frame with the correct proportions. Should only be called from the CPU thread.
 	void PresentCurrentFrame();
 
 	// Waits for the GS to empty out the entire ring buffer contents.
diff --git a/pcsx2/MTGS.cpp b/pcsx2/MTGS.cpp
index 399cbc36ad..8061b6fc65 100644
--- a/pcsx2/MTGS.cpp
+++ b/pcsx2/MTGS.cpp
@@ -953,6 +953,12 @@ void SysMtgsThread::ResizeDisplayWindow(int width, int height, float scale)
 		GSResetAPIState();
 		Host::ResizeHostDisplay(width, height, scale);
 		GSRestoreAPIState();
+
+#ifdef PCSX2_CORE
+		// If we're paused, re-present the current frame at the new window size.
+		if (VMManager::GetState() == VMState::Paused)
+			GSPresentCurrentFrame();
+#endif
 	});
 }
 
@@ -963,6 +969,12 @@ void SysMtgsThread::UpdateDisplayWindow()
 		GSResetAPIState();
 		Host::UpdateHostDisplay();
 		GSRestoreAPIState();
+
+#ifdef PCSX2_CORE
+		// If we're paused, re-present the current frame at the new window size.
+		if (VMManager::GetState() == VMState::Paused)
+			GSPresentCurrentFrame();
+#endif
 	});
 }
 
@@ -1030,7 +1042,15 @@ bool SysMtgsThread::SaveMemorySnapshot(u32 width, u32 height, std::vector<u32>*
 
 void SysMtgsThread::PresentCurrentFrame()
 {
-	GSPresentCurrentFrame();
+	if (m_run_idle_flag.load(std::memory_order_relaxed))
+	{
+		// If we're running idle, we're going to re-present anyway.
+		return;
+	}
+
+	RunOnGSThread([]() {
+		GSPresentCurrentFrame();
+	});
 }
 
 void SysMtgsThread::SetRunIdle(bool enabled)