Notes.app of miPhone was not allowing me to save any new notes. This was after restoring the manual backup of notes.db. I have taken the backup of my Address book, notes and images data with iPhone Explorer.
With the help Terminal app from Cydia I was able to CD to my private dir to check the permission of the files. And I was right, the owner of the file was root instead of mobile. I executed
sudo chown mobile:mobile notes.db from the directory to solve the issues.
after, sudo chown mobile:mobile notes.db