Check 1: To view the image on a monitor, set the output resolution to around 150 dpi. To print, set it to around 300 dpi.
Check 2: Set Fading Correction, Grain Correction, etc. to None.
Check 3: In MP Navigator EX, deselect the Correct slanted document / Detect the orientation of text documents and rotate images checkbox and scan again.
Scan Settings Dialog Box (Photos/Documents)