Reading back through this thread I realize I never responded to this. Unless I'm completely misunderstanding what you're saying there.. what you say above is really false. The JB tool itself is actually built by the Pangu team and Jay Saurik himself. Absolutely zero to do with a pirate store. Now there's a check mark you need to remove in the JB process that if left checked installs the pirate PP store.. And we don't want that. But even that's easy to remove if you forget - and the JB tool that you reJB with after each reboot is perfectly safe and not to be confused with the PP Store pirate site.
A number of things I've seen you write on this new JB topic, SciFi are inacurate. With due respect please research a little more carefully. Jailbreaking is confusing enough.