Okay, I have a patch that should hopefully at least solve the surface
level problem for you.  Could you please run the install one last time
for me, following these instructions:

Press "Try Ubuntu" at the first screen.  When the desktop appears, connect to 
the Internet, open a terminal window, then run the following commands:
sudo apt-get -y install patch
wget 
https://bugs.edge.launchpad.net/ubuntu/+source/ubiquity/+bug/630529/+attachment/1672796/+files/630529.patch
 -O /tmp/patch
cd /usr/lib/ubiquity
sudo patch -p0 < /tmp/patch # Make sure this command completes successfully
sed -i 's/#set -x/set -x/' /usr/share/grub-installer/grub-installer
ubiquity -d

Run through the install again and let me know if the bootloader is still
getting installed to the pen drive.  If it's not, please attach
/var/log/installer/debug and /var/log/syslog from that installation
attempt.

Thanks a bunch for all your help in getting to the bottom of this!

** Changed in: ubiquity (Ubuntu)
   Importance: High => Critical

** Changed in: ubiquity (Ubuntu)
    Milestone: None => ubuntu-10.10

-- 
Installing from USB drive writes boot sector to USB not HDD
https://bugs.launchpad.net/bugs/630529
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