Although you can manually kern individual pairs of letters and specify “tracking” (global amount of spacing between letters) to a particular style, there is no way in InDesign to specify and save global overrides for any font's own kerning table.
If you believe that a particular font has very poor kerning tables, one thing you might try is the automatic kerning option which applies kerning based on the letterform shapes. It works fairly well with Western Latin alphabets, but I don't know how it might work with Arabic.
- Dov