Here's the items I had to change:
gksu gedit /etc/apt/source.list
sudo gedit /etc/apt/sources.list
gksu gedit /etc/fstab
I also altered my fstab entry to;
sudo gedit /etc/fstab
This allowed me (sole user of the machine) ownership of the partition.
/dev/hda1 /media/windows ntfs-3g silent,locale=en_US.utf8,umask=000,uid=1000,gid=1000 0 0
I don't recall why I changed gksu to sudo in the first two commands but I do recall it making a difference. I seem to remember it was creating a new empty file instead of opening the existing one.
Also, not sure why it didn't seem to work with the suggested fstab entry but I think it gave ownership and permissions to root and for me that was the easiest way to change permissions. I may have been getting some sort of error with chown.
Hope this helps anyone with similar problems, it was stupid of me not to post right away, sorry.
Now for a new problem. Did a system update this evening and the new version of ntfs-3g seems to have mounting problems. Also upgraded to 2.6.15-26-386 kernel. Any clues?