Pokémon Showdown sets can be imported/exported in addition to QR codes.
Nintendo 3DS savedata containers use an AES MAC that cannot be emulated without the 3DS's keys, thus a resigning service is required (svdt, save_manager, or SaveDataFiler).
On Debian, you can install MonoDevelop and [Mono](http://www.mono-project.com/) runtime with `sudo apt-get install monodevelop`. GNU/Linux is not the main Operating System of developers of this program so there may be bugs; some may come from non GNU/Linux specific code of Mono (so developers using *BSD, Windows and OS X should be able to reproduce them).