Mike
You will need to do a tape backup if you have a lot of data.
You could try a backup to desktop but Windows has a file size limit of 2Gb so if your data creates a backup file larger than 2Gb, it won't work.
You could try copying all your ibay data and user home folder data onto Windows workstations, and once copied delete the files off the server but leave the empty ibays there.
This will free up a lot of space and then you could do a backup to desktop, which needs to be less than the 2Gb limit again, but this will have all your user configurations, ibays, email, server setup etc.
Then do a clean instal on your new hard drive and then restore from desktop, and then copy your data from the Windows backups back to the server ibays and home folders.
It's a bit of a juggle, but I have done it a few times and it works OK.
Much easier if you have a tape drive though.
Regards
Ray Mitchell