I've updated the Joypad Mod to version 1.6.1 of Minecraft. It's compatible with the new launcher, and contains all of the old features of previous versions + the workaround for the "auto-strafe upon entering the world" issue. It's still not Forge-friendly, but it'll get there eventually ;).
Enjoy this version, and report bugs, so I can fix them for 1.6.2 ;)