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Do you have the World-Ready composer turned on? An Arabic-enabled version of InDesign installed?
Which Arabic fonts, in particular, are not working? Are they Unicode Compliant?
it's turned on, but a lot of arabic fonts are not working, like all ATX fonts, and ARA fonts do not work properly.
all these problem wasn't there when working with indesign cs3 or cs5. from cs6 an on arabic fonts problems increased.
Many Arabic fonts are not Unicode compliant (AXT being one group). Contact the font vendors to ask them to update the fonts.