As I noticed that older versions of ftbrony have problems with Ninjhax (f.e. not being able to exit back to the Homebrew Launcher), I compiled the current source code from Github. I didn't change anything else, so I take no credit for this at all. Download is attached. To use, connect both your computer and 3DS to the same network. In Windows, you can access the file system via the Explorer, enter ftp://[displayed_IP]:[displayed_port] (no, that link won't work, it's just an example). Works like a charm for me, even better than Nintendo's built in file manager network connection. I don't intend to change anything for this, but if there's something that bugs you, you may kindly ask and if I take interest in it I may change it. UPDATE: Newer version attached to this post, includes a new (prettier) user interface now. Download ftbrony_ninjhax_20151004.zip if you want to us it!