A lot of these issues are caused by people not following instructions or listening to people's advice.Originally Posted by Wolfseye
I Jailbroke my iPad on my room mates computer (but I forgot to backup) using the CLI tool, worked fine.
Restored from the cloud, then Jailbroke my iPad (again) and my iPhone 4s using the windows tool and again worked flawlessly. the only problem I had was the blank icons, I restored using iTunes and re-Jailbroke again fine (this issue is resolved now by installing a tweak from cydia apparently)
Each time I backuped the iPad then erased all settings and data using the settings (if it's already Jailbroke and you have to restore for any reason do it from iTunes rather than the settings way otherwise it hangs) jailbreaks were all flawless.