After struggling for over a month with a lower resolution I finally found the fix.
The issue : Dual monitors configures with a Nvidia Card , But one monitor has the best resolution 1280×1024 and the other one doesnt seem to support the best resolution.
Add the correct refresh rate for the lower resolution monitor and after you restart X you will get the optimum resolution enabled for both and Nvidia-settings app can be used to set the appropriate and save the xorg file.
Below is a link to my xorg.conf file refer to the lines 49-50. My monitor is a Dell LCD 17″.
Hope this helps.