### Godot version

4.1.1.stable, 4.2.dev (2282fc5de)

### System information

Arch Linux - X11 - GLES3 (Compatibility) - NVIDIA GeForce RTX 3060 Ti (nvidia; 535.104.05) - 13th Gen Intel(R) Core(TM) i5-13400F (16 Threads)

### Issue description

When using Compatibility renderer, adjusting the Alpha component of clear color affects 2D editor content.

This does not happen when using Forward+ or Mobile renderer. Does not affect 3D editor and the running game.


https://github.com/godotengine/godot/assets/372476/e398522e-590a-4832-959f-ea8ba8e71c5d



### Steps to reproduce

1. Create a project using Compatibility renderer.
2. Adjust the clear color's alpha component in Project Settings.

### Minimal reproduction project

N/A
state.instance_data_array[r_index].modulation[1] = rect->modulate.g * base_color.g;
				state.instance_data_array[r_index].modulation[2] = rect->modulate.b * base_color.b;
				state.instance_data_array[r_index].modulation[3] = rect->modulate.a * base_color.a;
				state.instance_data_array[r_index].src_rect[0] = src_rect.position.x;
				state.instance_data_array[r_index].src_rect[1] = src_rect.position.y;
				state.instance_data_array[r_index].src_rect[2] = src_rect.size.width;
				state.instance_data_array[r_index].src_rect[3] = src_rect.size.height;
				state.instance_data_array[r_index].dst_rect[0] = dst_rect.position.x;
				state.instance_data_array[r_index].dst_rect[1] = dst_rect.position.y;
				state.instance_data_array[r_index].dst_rect[2] = dst_rect.size.width;
				state.instance_data_array[r_index].dst_rect[3] = dst_rect.size.height;
				_add_to_batch(r_index, r_batch_broken);
			} break;
			case Item::Command::TYPE_NINEPATCH: {
				const Item::CommandNinePatch *np = static_cast<const Item::CommandNinePatch *>(c);
				if (np->texture != state.canvas_instance_batches[state.current_batch_index].tex || state.canvas_instance_batches[state.current_batch_index].command_type != Item::Command::TYPE_NINEPATCH) {
					_new_batch(r_batch_broken);
					state.canvas_instance_batches[state.current_batch_index].tex = np->texture;
					state.canvas_instance_batches[state.current_batch_index].command_type = Item::Command::TYPE_NINEPATCH;
					state.canvas_instance_batches[state.current_batch_index].command = c;
					state.canvas_instance_batches[state.current_batch_index].shader_variant = CanvasShaderGLES3::MODE_NINEPATCH;
				}
				_prepare_canvas_texture(np->texture, state.canvas_instance_batches[state.current_batch_index].filter, state.canvas_instance_batches[state.current_batch_index].repeat, r_index, texpixel_size);
				Rect2 src_rect;
				Rect2 dst_rect(np->rect.position.x, np->rect.position.y, np->rect.size.x, np->rect.size.y);
				if (np->texture == RID()) {
					texpixel_size = Size2(1, 1);
					src_rect = Rect2(0, 0, 1, 1);
				} else {
					if (np->source != Rect2()) {