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I tried deleting the ~/.config/calibre folder and that made no difference, it still takes 2 minutes to start, so it's not a rogue plugin or corrupted config causing it.
One thing to note is my library is sitting on an NTFS drive, so I will try copying my library to an ext4 drive and see if that makes any difference.
oh and by the way I am running Fedora 15 with gnome-shell
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