Comment 2 for bug 1397510

Looks like your bookmark file got corrupted. This should not happen by just using midori. I could happen if you are very unfortunate and forcibly quit the process when it was in the middle of db operations (really should not happen during normal use).

You may want to rename/move your bookmarks.db (and maybe history.db) from your config directory
Example: C:\Users\MyLogin\AppData\Local\midori on win8. If you can run midori from command line
you can run midori -p and then go to about:paths to find out the config dir. Alternatively on windows
there is --portable switch that uses "portable" folder to store midori files instead of system folders.