With new version of Flauncher v0.4b it is easy.
Just keep structure of folders in your \MODNAME\ directory.
And create 2 text files there: servers.txt and info.txt with
information regarding servers which run MOD (or leave empty)
and MOD itself. Thats it.

If you need a clue just download Flauncher and look into
\mods\ folder.

Have a nice time moding