Found this issue on a project, tested against the electron-quick-start and found the problem still exists.

Simply adding "frame: false" to the new BrowserWindow() call will cause it.
- Electron version: 0.37.5
- Operating system: Windows

![capture](https://cloud.githubusercontent.com/assets/5051169/14453254/a38c177c-008b-11e6-9e80-97c6a95c816e.PNG)

atom/browser/native_window.cc
#include "atom/common/native_mate_converters/image_converter.h"
#include "atom/common/native_mate_converters/file_path_converter.h"
#include "atom/common/options_switches.h"
#include "base/files/file_util.h"
#include "base/json/json_writer.h"
#include "base/prefs/pref_service.h"
#include "base/message_loop/message_loop.h"
#include "base/strings/utf_string_conversions.h"
#include "brightray/browser/inspectable_web_contents.h"
#include "brightray/browser/inspectable_web_contents_view.h"
#include "content/browser/renderer_host/render_widget_host_impl.h"
#include "content/public/browser/navigation_entry.h"
#include "content/public/browser/plugin_service.h"
#include "content/public/browser/render_process_host.h"
#include "content/public/browser/render_view_host.h"
#include "content/public/browser/render_widget_host.h"
#include "content/public/browser/render_widget_host_view.h"
#include "content/public/common/content_switches.h"
#include "ipc/ipc_message_macros.h"
#include "native_mate/dictionary.h"
#include "ui/gfx/codec/png_codec.h"
#include "ui/gfx/geometry/point.h"
#include "ui/gfx/geometry/rect.h"
#include "ui/gfx/geometry/size.h"
#include "ui/gfx/geometry/size_conversions.h"
#include "ui/gfx/screen.h"
#include "ui/gl/gpu_switching_manager.h"
DEFINE_WEB_CONTENTS_USER_DATA_KEY(atom::NativeWindowRelay);
namespace atom {
NativeWindow::NativeWindow(