diff --git a/bin/resources/gs_dx11/convert.fx b/bin/resources/shaders/dx11/convert.fx
similarity index 100%
rename from bin/resources/gs_dx11/convert.fx
rename to bin/resources/shaders/dx11/convert.fx
diff --git a/bin/resources/gs_dx11/fxaa.fx b/bin/resources/shaders/dx11/fxaa.fx
similarity index 100%
rename from bin/resources/gs_dx11/fxaa.fx
rename to bin/resources/shaders/dx11/fxaa.fx
diff --git a/bin/resources/gs_dx11/interlace.fx b/bin/resources/shaders/dx11/interlace.fx
similarity index 100%
rename from bin/resources/gs_dx11/interlace.fx
rename to bin/resources/shaders/dx11/interlace.fx
diff --git a/bin/resources/gs_dx11/merge.fx b/bin/resources/shaders/dx11/merge.fx
similarity index 100%
rename from bin/resources/gs_dx11/merge.fx
rename to bin/resources/shaders/dx11/merge.fx
diff --git a/bin/resources/gs_dx11/shadeboost.fx b/bin/resources/shaders/dx11/shadeboost.fx
similarity index 100%
rename from bin/resources/gs_dx11/shadeboost.fx
rename to bin/resources/shaders/dx11/shadeboost.fx
diff --git a/bin/resources/gs_dx11/tfx.fx b/bin/resources/shaders/dx11/tfx.fx
similarity index 100%
rename from bin/resources/gs_dx11/tfx.fx
rename to bin/resources/shaders/dx11/tfx.fx
diff --git a/bin/resources/gs_opengl/common_header.glsl b/bin/resources/shaders/opengl/common_header.glsl
similarity index 100%
rename from bin/resources/gs_opengl/common_header.glsl
rename to bin/resources/shaders/opengl/common_header.glsl
diff --git a/bin/resources/gs_opengl/convert.glsl b/bin/resources/shaders/opengl/convert.glsl
similarity index 100%
rename from bin/resources/gs_opengl/convert.glsl
rename to bin/resources/shaders/opengl/convert.glsl
diff --git a/bin/resources/gs_opengl/interlace.glsl b/bin/resources/shaders/opengl/interlace.glsl
similarity index 100%
rename from bin/resources/gs_opengl/interlace.glsl
rename to bin/resources/shaders/opengl/interlace.glsl
diff --git a/bin/resources/gs_opengl/merge.glsl b/bin/resources/shaders/opengl/merge.glsl
similarity index 100%
rename from bin/resources/gs_opengl/merge.glsl
rename to bin/resources/shaders/opengl/merge.glsl
diff --git a/bin/resources/gs_opengl/shadeboost.glsl b/bin/resources/shaders/opengl/shadeboost.glsl
similarity index 100%
rename from bin/resources/gs_opengl/shadeboost.glsl
rename to bin/resources/shaders/opengl/shadeboost.glsl
diff --git a/bin/resources/gs_opengl/tfx_fs.glsl b/bin/resources/shaders/opengl/tfx_fs.glsl
similarity index 100%
rename from bin/resources/gs_opengl/tfx_fs.glsl
rename to bin/resources/shaders/opengl/tfx_fs.glsl
diff --git a/bin/resources/gs_opengl/tfx_vgs.glsl b/bin/resources/shaders/opengl/tfx_vgs.glsl
similarity index 100%
rename from bin/resources/gs_opengl/tfx_vgs.glsl
rename to bin/resources/shaders/opengl/tfx_vgs.glsl
diff --git a/pcsx2/GS/Renderers/DX11/GSDevice11.cpp b/pcsx2/GS/Renderers/DX11/GSDevice11.cpp
index 8f80ae5472..75601e87c2 100644
--- a/pcsx2/GS/Renderers/DX11/GSDevice11.cpp
+++ b/pcsx2/GS/Renderers/DX11/GSDevice11.cpp
@@ -218,7 +218,7 @@ bool GSDevice11::Create(const WindowInfo& wi)
 		m_hack_topleft_offset = (m_upscale_multiplier != 1 && D3D::IsNvidia(adapter.get()) && !disable_safe_features) ? -0.01f : 0.0f;
 	}
 
-	std::optional<std::string> shader = Host::ReadResourceFileToString("gs_dx11/tfx.fx");
+	std::optional<std::string> shader = Host::ReadResourceFileToString("shaders/dx11/tfx.fx");
 	if (!shader.has_value())
 		return false;
 	m_tfx_source = std::move(*shader);
@@ -234,7 +234,7 @@ bool GSDevice11::Create(const WindowInfo& wi)
 
 	ShaderMacro sm_model(m_shader.model);
 
-	shader = Host::ReadResourceFileToString("gs_dx11/convert.fx");
+	shader = Host::ReadResourceFileToString("shaders/dx11/convert.fx");
 	if (!shader.has_value())
 		return false;
 	CreateShader(*shader, "convert.fx", nullptr, "vs_main", sm_model.GetPtr(), &m_convert.vs, il_convert, std::size(il_convert), m_convert.il.put());
@@ -275,7 +275,7 @@ bool GSDevice11::Create(const WindowInfo& wi)
 
 	m_dev->CreateBuffer(&bd, nullptr, m_merge.cb.put());
 
-	shader = Host::ReadResourceFileToString("gs_dx11/merge.fx");
+	shader = Host::ReadResourceFileToString("shaders/dx11/merge.fx");
 	if (!shader.has_value())
 		return false;
 
@@ -307,7 +307,7 @@ bool GSDevice11::Create(const WindowInfo& wi)
 
 	m_dev->CreateBuffer(&bd, nullptr, m_interlace.cb.put());
 
-	shader = Host::ReadResourceFileToString("gs_dx11/interlace.fx");
+	shader = Host::ReadResourceFileToString("shaders/dx11/interlace.fx");
 	if (!shader.has_value())
 		return false;
 	for (size_t i = 0; i < std::size(m_interlace.ps); i++)
@@ -331,7 +331,7 @@ bool GSDevice11::Create(const WindowInfo& wi)
 
 	m_dev->CreateBuffer(&bd, nullptr, m_shadeboost.cb.put());
 
-	shader = Host::ReadResourceFileToString("gs_dx11/shadeboost.fx");
+	shader = Host::ReadResourceFileToString("shaders/dx11/shadeboost.fx");
 	if (!shader.has_value())
 		return false;
 	CreateShader(*shader, "shadeboost.fx", nullptr, "ps_main", sm_sboost.GetPtr(), m_shadeboost.ps.put());
@@ -969,7 +969,7 @@ void GSDevice11::DoFXAA(GSTexture* sTex, GSTexture* dTex)
 	{
 		try
 		{
-			std::optional<std::string> shader = Host::ReadResourceFileToString("gs_dx11/fxaa.fx");
+			std::optional<std::string> shader = Host::ReadResourceFileToString("shaders/dx11/fxaa.fx");
 			if (shader.has_value())
 			{
 				ShaderMacro sm(m_shader.model);
diff --git a/pcsx2/GS/Renderers/OpenGL/GSDeviceOGL.cpp b/pcsx2/GS/Renderers/OpenGL/GSDeviceOGL.cpp
index faaca6c4ca..e004e97cc3 100644
--- a/pcsx2/GS/Renderers/OpenGL/GSDeviceOGL.cpp
+++ b/pcsx2/GS/Renderers/OpenGL/GSDeviceOGL.cpp
@@ -323,7 +323,7 @@ bool GSDeviceOGL::Create(const WindowInfo& wi)
 	}
 
 	{
-		auto shader = Host::ReadResourceFileToString("gs_opengl/common_header.glsl");
+		auto shader = Host::ReadResourceFileToString("shaders/opengl/common_header.glsl");
 		if (!shader.has_value())
 			return false;
 
@@ -444,7 +444,7 @@ bool GSDeviceOGL::Create(const WindowInfo& wi)
 		m_misc_cb_cache.ScalingFactor = GSVector4i(std::max(1, theApp.GetConfigI("upscale_multiplier")));
 		m_convert.cb->cache_upload(&m_misc_cb_cache);
 
-		const auto shader = Host::ReadResourceFileToString("gs_opengl/convert.glsl");
+		const auto shader = Host::ReadResourceFileToString("shaders/opengl/convert.glsl");
 		if (!shader.has_value())
 			return false;
 
@@ -480,7 +480,7 @@ bool GSDeviceOGL::Create(const WindowInfo& wi)
 
 		m_merge_obj.cb = new GSUniformBufferOGL("Merge UBO", g_merge_cb_index, sizeof(MergeConstantBuffer));
 
-		const auto shader = Host::ReadResourceFileToString("gs_opengl/merge.glsl");
+		const auto shader = Host::ReadResourceFileToString("shaders/opengl/merge.glsl");
 		if (!shader.has_value())
 			return false;
 
@@ -500,7 +500,7 @@ bool GSDeviceOGL::Create(const WindowInfo& wi)
 
 		m_interlace.cb = new GSUniformBufferOGL("Interlace UBO", g_interlace_cb_index, sizeof(InterlaceConstantBuffer));
 
-		const auto shader = Host::ReadResourceFileToString("gs_opengl/interlace.glsl");
+		const auto shader = Host::ReadResourceFileToString("shaders/opengl/interlace.glsl");
 		if (!shader.has_value())
 			return false;
 
@@ -525,7 +525,7 @@ bool GSDeviceOGL::Create(const WindowInfo& wi)
 			+ format("#define SB_BRIGHTNESS %d.0\n", ShadeBoost_Brightness)
 			+ format("#define SB_CONTRAST %d.0\n", ShadeBoost_Contrast);
 
-		const auto shader = Host::ReadResourceFileToString("gs_opengl/shadeboost.glsl");
+		const auto shader = Host::ReadResourceFileToString("shaders/opengl/shadeboost.glsl");
 		if (!shader.has_value())
 			return false;
 
@@ -654,8 +654,8 @@ bool GSDeviceOGL::CreateTextureFX()
 {
 	GL_PUSH("GSDeviceOGL::CreateTextureFX");
 
-	auto vertex_shader = Host::ReadResourceFileToString("gs_opengl/tfx_vgs.glsl");
-	auto fragment_shader = Host::ReadResourceFileToString("gs_opengl/tfx_fs.glsl");
+	auto vertex_shader = Host::ReadResourceFileToString("shaders/opengl/tfx_vgs.glsl");
+	auto fragment_shader = Host::ReadResourceFileToString("shaders/opengl/tfx_fs.glsl");
 	if (!vertex_shader.has_value() || !fragment_shader.has_value())
 		return false;
 
@@ -1611,7 +1611,7 @@ void GSDeviceOGL::DoFXAA(GSTexture* sTex, GSTexture* dTex)
 		std::string fxaa_macro = "#define FXAA_GLSL_130 1\n";
 		fxaa_macro += "#extension GL_ARB_gpu_shader5 : enable\n";
 
-		std::optional<std::string> shader = Host::ReadResourceFileToString("gs_opengl/fxaa.fx");
+		std::optional<std::string> shader = Host::ReadResourceFileToString("shaders/opengl/fxaa.fx");
 		if (!shader.has_value())
 			return;