OpenOffice - http://www.openoffice.org
Abiword - http://www.abisource.com
MikTeX - http://www.miktex.org
LyX - http://www.lyx.org
J-edit - http://www.jedit.org
Notepad2 - http://www.flos-freeware.ch/notepad2.html
TeXnicCenter - http://www.toolscenter.org
Gvim - http://www.vim.org
Emacs - ver Emacs e EmacsExtras mais informação no EmacsWiki
Gimp - http://www.gimp.org
Dia - http://dia-installer.sourceforge.net
Blender - http://www.blender3d.org
SodiPodi http://sodipodi.sourceforge.net (desenho vetorial)
Gnuplot - www.gnuplot.info
Springgraph - gerador de grafos e árvores: alternativa GPL ao Graphviz que tem código fonte aberto mas aparentemente não é SoftwareLivre nem OpenSource
http://www.chaosreigns.com/code/springgraph O Springgraph depende do Perl
DBDesigner4 - http://www.fabforce.net/dbdesigner4
Flightgear - http://www.flightgear.org/
Quake - http://www.idsoftware.com
Zinf - http://www.zinf.org/
Audacity - http://audacity.sourceforge.net/
nandub - http://ndub.sourceforge.net/
VCDImager - http://www.gnu.org/software/vcdimager/
MPlayer - http://www.mplayerhq.hu/
Videolan - http://www.videolan.org
Mozilla - http://www.mozilla.org
Sim - http://sim-icq.sourceforge.net/
Gaim (mensagens instantâneas) - http://gaim.sourceforge.net/
Miranda - http://www.miranda-im.org/
Putty (conexão remota) - http://www.chiark.greenend.org.uk/~sgtatham/putty/
savIRC - http://www.savirc.com/
nvu (editor HTML) - http://www.nvu.com
Eclipse - http://www.eclipse.org
Mingw - http://www.mingw.org
Dev-cpp - http://www.bloodshed.net
DrScheme - http://www.drscheme.org
Prolog - http://pauillac.inria.fr/~diaz/gnu-prolog/
WinCVS - http://cvsgui.sourceforge.net/
ArgoUML - http://argoluml.tigris.org: é em Java
Perl - http://www.activestate.com/Products/ActivePerl/system_requi O ActivePerl que possui uma community license, mais detalhes na página original ActivePerl
PHP Tulip - http://tulip.solis.coop.br/us/install_win.php
Há uma discussão mais completa em MatematicosWindows
Scilab - http://www-rocq.inria.fr/scilab/
Maxima - http://maxima.sourceforge.net/
Octave - http://octave.sourceforge.net/Octave_Windows.htm
X client
Filezilla - http://filezilla.sourceforge.net/
Tar, Gzip
7-zip - http://www.7-zip.org/
WinSCP - http://winscp.sourceforge.net/eng/
xpdf - http://www.foolabs.com/xpdf/
ghostview, ghostscript - http://www.ghostscript.com/
Celestia - http://www.shatters.net/celestia/
DeepSky - http://www.stargazing.net/astropc/
Emule - http://www.emule-project.net/
Bittorrent - http://bitconjurer.org/BitTorrent/
BlackBox - http://bb4win.org/
Gnome - http://cygnome.sourceforge.net/