- 7-Zip Portable
- AbiWord Portable
- Audacity Portable
- ClamWin Portable
- Command Prompt Portable
- FileZilla Portable
- GIMP Portable
- KeePass Portable
- Miranda IM Portable
- Mines-Perfect Portable
- Mozilla Firefox, Portable Edition
- Mozilla Sunbird, Portable Edition
- Mozilla Thunderbird, Portable Edition
- Notepad++ Portable
- Nvu Portable & KompoZer Portable
- On-Screen Keyboard Portable
- OpenOffice.org Portable
- Pidgin Portable
- PokerTH Portable
- PuTTY Portable
- Sudoku Portable
- Sumatra PDF Portable
- Virtual Magnifying Glass Portable
- VLC Media Player Portable
- winMd5Sum Portable
- More apps...

Unsupported
The Firefox for U3 package hosted on U3's site is an unofficial, unsupported package. It uses some very old code from Firefox Portable with known bugs (leaves things behind on PCs, doesn't support all features portably, etc) and is not supported by Mozilla or PortableApps.com. So, if you wish to update it, you're pretty much on your own, unfortunately.
The other option is to use the real Mozilla Firefox, Portable Edition from this website that works on any flash drive. You can copy your profile from an old copy of Firefox for U3. The files are located here:
?:\System\Apps\3C9F7B3F-D55C-42cd-8537-B878518B73AF\Data\profile
Install Mozilla Firefox, Portable Edition and run it once to let it setup its folders. Then clear out the contents of its profile and copy in the one from your old U3 install above. The profile is usually located here:
?:\PortableApps\FirefoxPortable\Data\profile
Live with purpose.