Hello Lyndon,
This wouldn't be a problem. When migrating a site to a new server (any type) you really only need to be concerned with the servers actual configuration. There has been a little trouble in some instances with windows machines and unzipping the backup file, but we have work around for this.
Below is a link the the BackupBuddy Codex Specification portion.
http://ithemes.com/codex/page/BackupBuddy#Specifications
Please let us know if this helps, or if you have any other questions!
Thanks,
Gerroald

