Using update-initramfs with WUBI

He should have ntfs-3g installed. If he did uninstall it, he will not be able to upgrade the kernel

Thanks Agostino, you are faster than Jigen :)

Apparently he upgraded succesfully, but then he is not able to boot anymore.
He is stopping with this error:

Loading Please Wait....
[43.675877] ATA1.00: SET of native returned 0, expected 195371568
[43.691836] ATA1.00: SET of native returned 0, expected 195371568

He has to boot using the old kernel (press esc fast after choosing ubuntu or edit c:\wubi\boot\grub\menu.lst), then install nfts-3g, then rebuild the initrd (update-initramfs)

Yes, I did un-install ntfs-3g because when it was installed, and I shut down or restarted, the shut down process halted and stalled with some other "not found" message. I will re-install ntfs-3g and rebuld the initrd (update-intramfs) with the command Cesare gave me and then try booting with the new kernel. The new kernel is in the grub boot menu when I press esc during booting. Do I need to re-install the new kernel again with ntfs-3g before booting, or do anything else. I'm not sure how to re-install the kernel. I only initial installed the kernel because it came in automatically in an update. If I get the same shut down problem I will post it.

ntfs-3g is istalled. When I sudo update-initramfs -u -k 2.6.20-16-generic, this is now the output:
steven@ubuntu:~$ sudo update-initramfs -u -k 2.6.20-16-generic
Password:
update-initramfs: Generating /boot/initrd.img-2.6.20-16-generic
cp: cannot stat `/etc/initramfs-tools/overlay/*': No such file or directory

The folder overlay exsists, but it is empty.

Also, I booted using the new kernel and did a ctrl+alt+f1 to see the screen as it crashes. I took a .jpg w/my camera that lists the messages on the screen. I don't know how to post an image here so you can view it here --> http://www.flickr.com/photos/7610778@N03/520973259/

It looks like the lupin-target package was accidentally overwritten or removed. Try downloading and installing it from here: http://cutlersoftware.com/ubuntusetup/wubi/downloads/updates/lupin-deb.html and also make sure ntfs-3g is installed, then try the update-initramfs again

Trying to install lupin-target-7.04-test3-1.deb using package installer says:
Could not open .... the package might be corrupted or you are not allowed to open the file. Check permissions of the file.

Here are 3 screens I captured when trying to shut down after installing ntfs-3g:
http://www.flickr.com/photos/7610778@N03/sets/72157600288750237/

Here are 2 screens I captured when trying to boot to new kernel:
http://www.flickr.com/photos/7610778@N03/sets/72157600289537196/

Now the update manager is saying:
'E:The package lupin-target needs to be reinstalled, but I can't find an archive for it.'

Are you guys tired of me?
I think I'm going backwards. Update manger reports:
E: The package lupin-target needs to be reinstalled, but I can't find an archive for it.
E: Internal error opening cache (1). Please report.

W: Duplicate sources.list entry http://us.archive.ubuntu.com feisty/main Packages (/var/lib/apt/lists/us.archive.ubuntu.com_ubuntu_dists_feisty_main_binary-i386_Packages)

seems like apt is having some sort of issue... try installing with dpkg -i:

cd /path/to/file
sudo dpkg -i ./lupin-target-test3.deb

ps, I just changed the url to the file to http://cutlersoftware.com/ubuntusetup/wubi/downloads/updates/lupindeb.html

typo on previous post, it should be:

sudo dpkg -i --force-all ./lupin-target-7.04-test3.deb

steven@ubuntu:~/Desktop$ sudo dpkg -i --force-all ./lupin-target-7.04-test3.deb
Password:
(Reading database ... 121033 files and directories currently installed.)
Preparing to replace lupin-target 1.0 (using ./lupin-target-7.04-test3.deb) ...
Leaving `diversion of /etc/initramfs-tools/update-initramfs.conf to /etc/initramfs-tools/update-initramfs.conf.orig by lupin-target'
Leaving `diversion of /etc/initramfs-tools/initramfs.conf to /etc/initramfs-tools/initramfs.conf.orig by lupin-target'
Leaving `diversion of /etc/initramfs-tools/modules to /etc/initramfs-tools/modules.orig by lupin-target'
Unpacking replacement lupin-target ...
Removing `diversion of /etc/initramfs-tools/update-initramfs.conf to /etc/initramfs-tools/update-initramfs.conf.orig by lupin-target'
dpkg-divert: rename involves overwriting `/etc/initramfs-tools/update-initramfs.conf' with
  different file `/etc/initramfs-tools/update-initramfs.conf.orig', not allowed
dpkg: warning - old post-removal script returned error exit status 2
dpkg - trying script from the new package instead ...
Removing `diversion of /etc/initramfs-tools/update-initramfs.conf to /etc/initramfs-tools/update-initramfs.conf.orig by lupin-target'
dpkg-divert: rename involves overwriting `/etc/initramfs-tools/update-initramfs.conf' with
  different file `/etc/initramfs-tools/update-initramfs.conf.orig', not allowed
dpkg: error processing ./lupin-target-7.04-test3.deb (--install):

hmm seems like the update-initramfs.conf has been tweaked outside of dpkg for some reason, try this to overwrite the customized version and use the standard one:

sudo cp /etc/initramfs-tools/update-initramfs.conf.orig /etc/initramfs-tools/update-initramfs.conf
sudo dpkg -i --force-all ./lupin-target-7.04-test3.deb

steven@ubuntu:~$ sudo cp /etc/initramfs-tools/update-initramfs.conf.orig /etc/initramfs-tools/update-initramfs.conf
steven@ubuntu:~$ sudo dpkg -i --force-all ./lupin-target-7.04-test3.deb
dpkg: error processing ./lupin-target-7.04-test3.deb (--install):
 cannot access archive: No such file or directory
Errors were encountered while processing:
 ./lupin-target-7.04-test3.deb

Oops. I think I have to be on Desktop (that's where file is) Now I get:
steven@ubuntu:~$ cd Desktop
steven@ubuntu:~/Desktop$ sudo dpkg -i --force-all ./lupin-target-7.04-test3.deb
(Reading database ... 121033 files and directories currently installed.)
Preparing to replace lupin-target 1.0 (using ./lupin-target-7.04-test3.deb) ...
Leaving `diversion of /etc/initramfs-tools/update-initramfs.conf to /etc/initramfs-tools/update-initramfs.conf.orig by lupin-target'
Leaving `diversion of /etc/initramfs-tools/initramfs.conf to /etc/initramfs-tools/initramfs.conf.orig by lupin-target'
Leaving `diversion of /etc/initramfs-tools/modules to /etc/initramfs-tools/modules.orig by lupin-target'
Unpacking replacement lupin-target ...
Removing `diversion of /etc/initramfs-tools/update-initramfs.conf to /etc/initramfs-tools/update-initramfs.conf.orig by lupin-target'
dpkg-divert: rename involves overwriting `/etc/initramfs-tools/update-initramfs.conf' with
  different file `/etc/initramfs-tools/update-initramfs.conf.orig', not allowed
dpkg: warning - old post-removal script returned error exit status 2
dpkg - trying script from the new package instead ...
Removing `diversion of /etc/initramfs-tools/update-initramfs.conf to /etc/initramfs-tools/update-initramfs.conf.orig by lupin-target'
dpkg-divert: rename involves overwriting `/etc/initramfs-tools/update-initramfs.conf' with
  different file `/etc/initramfs-tools/update-initramfs.conf.orig', not allowed
dpkg: error processing ./lupin-target-7.04-test3.deb (--install):
 subprocess new post-removal script returned error exit status 2
Leaving `diversion of /etc/initramfs-tools/update-initramfs.conf to /etc/initramfs-tools/update-initramfs.conf.orig by lupin-target'
Leaving `diversion of /etc/initramfs-tools/initramfs.conf to /etc/initramfs-tools/initramfs.conf.orig by lupin-target'
Leaving `diversion of /etc/initramfs-tools/modules to /etc/initramfs-tools/modules.orig by lupin-target'
Removing `diversion of /etc/initramfs-tools/update-initramfs.conf to /etc/initramfs-tools/update-initramfs.conf.orig by lupin-target'
dpkg-divert: rename involves overwriting `/etc/initramfs-tools/update-initramfs.conf' with
  different file `/etc/initramfs-tools/update-initramfs.conf.orig', not allowed
dpkg: error while cleaning up:
 subprocess post-removal script returned error exit status 2
Errors were encountered while processing:
 ./lupin-target-7.04-test3.deb

Should I reinstall and start over? Maybe I've done something before that is causing the issue. I'm very familiar with XP but I am drawn to Linux (you know all the reasons) and I thought using WUBI would allow me to get familiar without putting my XP at risk. I'm used to these types of problems with MS stuff, so I image my drive often knowing that sooner or later something will go wrong with windows and I'll have to go back. Is that the same thinking I should use with Ubuntu or is there a better way to get back to where I was in Linux other than having to image the whole drive? With Wubi, I think I can just copy the WUBI folder or even just a portion of it to go back to a previous state.
What do you think?

Lookie here:
Linux ubuntu 2.6.20-16-generic #2 SMP Wed May 23 01:46:23 UTC 2007 i686 GNU/Linux
How did I fix it? How else; a reinstall. I must have messed something up sometime.
I really appreciate all of help and the time that you all spent working with me.
I will learn from this, but, this is the hard way. I'm going to have to to some book-learning before I start typing commands.
Thanks again for all the help.
It's people like you that make the Linux community a great place to participate and learn.

It's probably much easier to reinstall, download the new version (test3) from the website

OK, 1 more time.
I've done a clean install, again, of Ubuntu using Wubi.
I did an update.
Everything went fine during the update (I looked at the detail text that was generated in update manager), except this message:
update-initramfs: Generating /boot/initrd-img-2.6.20-16-generic
cp: cannot stat `/etc/initramfs-tools/overlay/*': No such file or directory
Same old thing. I don't know if that is important, but, if it is I don't want to build on top of a problem installation
Any ideas?
Thanks

Yes I am able to boot with the new kernel after doing a reinstall. If the remaining error is no problem, then I'm set.
Thanks for all the help.

Thanks Agostino Russo, that solved my question.

Last night i installed Ubundu using Wubi installer,infact i installed it from the dowladed copy and i am using Dell laptop inspiron 1525 core duo. However, now I can't open Ubuntu. When I try I get the following:
BusyBox v1.1.3 (Debrian 1:1.1.3-5 Ubuntu12) Built-in shell (ash)
Enter 'help' for a list of built-in commands
(initramfs)_

Please advise with easy steps because i am very new to linux