Dir2ogg - Python script that converts MP3, WAV, and M4A files to Ogg format. - http://badcomputer.org/unix/dir2ogg/
GramoFile - Assists in moving gramophone records onto CDs. Filters out hiss and pops. - http://www.opensourcepartners.nl/~costar/gramofile/
Cdgtools - Suite of tools for handling CD+G karaoke disks and files. - http://www.kibosh.org/cdgtools/
Gnome Wave Cleaner - An audio cleanup tool for GNOME. Handles WAV, MP3, and Ogg. - http://gwc.sourceforge.net/
MusE - MIDI/Audio sequencer with recording and editing capabilities. - http://www.muse-sequencer.org/
PyKaraoke - CDG/MP3+G karaoke player. Can search inside Zip files. - http://www.kibosh.org/pykaraoke/
Grip - Cd-player and cd-ripper. It also provides an automated frontend for MP3 and other audio format encoders. - http://nostatic.org/grip/
Rosegarden - MIDI sequencer and notation editor for Unix-like systems. - http://www.rosegardenmusic.com/
Zero Tolerance's Cue Creator - A small Perl script that allows you to create CUE and MP3/OGG/WAV-files from audio CD's. - http://www.x-a.be/index.php?page=14
TiMidity++ - MIDI player, converter to wav. Uses Gravis compatible patches and can play these through soundcards lacking their own patches. - http://sourceforge.net/projects/timidity/
The TAON Project - A sound editor for Linux. - http://www.informatik.uni-frankfurt.de/~eschenb/taon/
Linux Sampler Project - Audio sampler with features similar to hardware samplers. Offers speed, high audio quality rates, supports common sample library formats. - http://www.linuxsampler.org
Lilypond - Creates beautiful music notation from text input. Outputs Postscript, SVG or MIDI files. GNU license. - http://lilypond.org/web/
CoverViewer XMMS Plugin - Displays covers or images related to songs. Internet cover retrieval facility. Handles tagged files, CDs, and streams. - http://coverviewer.sourceforge.net
IMMS: Intelligent Multimedia Management System - Playlist plug-in for XMMS that tracks the user's listening patterns and dynamically adapts to suit tastes. - http://www.luminal.org/phpwiki/index.php/IMMS
Philip's Music Writer - A music typesetter. Input is a plain text file, output is in PostScript. - http://www.quercite.com/pmw.html
BEAST/BSE - GTK+/GNOME based front-end to BSE framework to simulate audio synthesis and tracking composition. - http://beast.gtk.org
Baudline Signal Analyzer - Realtime signal analysis and spectrum analyzer tool. - http://www.baudline.com
ZynAddSubFX - Synthesizer with two engines, realtime polyphonic, Midi support, microtonal capability, effects. - http://zynaddsubfx.sourceforge.net
Orpheus - Text and window mode audio player for CDs and MP3 with CDDB interface. - http://konst.org.ua/orpheus
Mixxx - Open source DJ mixer. - http://mixxx.sourceforge.net
Sound Processing Kit - An object-oriented class library for audio signal processing. - http://www.music.helsinki.fi/research/spkit
XMMS-SID SIDplay Plugin - Plug-in for playing Commodore 64 music (SID tunes) with XMMS. Requires libSIDPlay library (link given). - http://www.tnsp.org/xmms-sid.php
GNOMAD - GTK+ client program for the NOMAD Jukebox, using libnjb and id3lib to handle communications and ID3 tagging. - http://www.df.lth.se/~triad/krad/gnomad/
AlsaPlayer - PCM player written for ALSA driver and library, supports other outputs like OSS and esd. Plug-in interface. - http://www.alsaplayer.org/
GLAME - Free and extensible Linux/Unix audio editor. GNU licence. - http://glame.sourceforge.net/en/index.var
xmp: Extended Module Player - Open source (GNU GPL) portable module player for Unix or Win32. - http://xmp.sourceforge.net/
SoundTracker - MOD tracker for X, similar to FastTracker. Includes a sample recorder and editor. - http://www.soundtracker.org/
Aumix - Adjusts an audio mixer. X and ncurses interfaces. - http://jpj.net/~trevor/aumix.html
Audio File Library - An API for accessing a variety of audio file formats. - http://www.68k.org/~michael/audiofile/
Matti Koskinen Software - Programs including a de-noiser, MIDI generation from fractals, sound creation from gifs. - http://www.sci.fi/~mjkoskin/
Ecasound - Audio software for Unix. - http://www.eca.cx/