Glad it worked !
Now its the time to mark thread as solved
This is a special case of Ubuntu installation. Its on External HDD and its not the same as Internal. When your system boots the external drive do not load as quick as internal , so you must wait few second for the drive to be ready and then you can boot in it.
I am not sure but , i don't think that you will have problems if you leave the disk docked . If you unplugged and boot your system i don't know if you will be able to start any OS.. check it out and if you are , then you can do anything please you . I don't know and i never heard about MBR problems in this case.
If you are still having issues I would try a drastic wipe, re partition and re-install.
Deriks boot and nuke for the win.
search google for DBAN, (i'd give you a link but i'm in Afghan right now so most download and software sites are blocked)
-burn the ISO file to a blank cd
-reboot your computer and boot from the cd (with the usb drive attached)
-once DBAN begins READ THE INFORMATION CAREFULLY!!! configure it to errase your WD passport drive and ONLY that drive, with the level data errasure you would like. (the default DOD wipe is usually sufficent)
-go our or dinner and a movie (this takes a WHILE) lol
-once complete, remove the cd, insert the live usb or disk you use to install ubuntu and boot from it
-once in the ubuntu live os, open the dash (pop up menu on the left, or just hit the windows key on the keyboard) and search for a program called gparted (type usb or dive and it will come up)
-Use gparted to format your WD disk to ext3 (to be safe)
-After that you can finally install the os to the now readable WD drive, it should take care of the rest (swap partitions data partations and master boot record/flag) if not let me know and I can walk you thru it.
Followed your instructions to the letter. Now everything boots up just fine, but almost every time I boot up, the mouse freezes. I'm looking into mouse freezing around here but wanted to post this update and see if there were any 'new' issues with mouse freezing with Ubuntu 12.04
I'm using a Logitech track-ball mouse, and even Windows always managed to make it work, so...........?????
Going to mark this one as SOLVED, since apparently the problems I'm having now with my Logitech mouse don't fall under this thread. No big deal. THANK YOU to ALL who helped me get this far.
You ALL !!!!! \m/