Here is my list of good journals on Middle East Studies, by publisher:

Routlede (Taylor & Francis Group)

• British Journal of Middle Eastern Studies (2011 Impact Factor of 0.275)
• Middle Eastern Studies (2011 Impact Factor of 0.158)
• Iranian Studies (2011 Impact Factor of 0.071)
• The Journal of The Middle East and Africa
• Middle East Critique

These two are also relevant:

• Islam and Christian–Muslim Relations
• Journal of Muslim Minority Affairs

Cambridge University Press

• International Journal Of Middle East Studies (2011 Impact Factor of 0.593)
• Bulletin of the School of Oriental and African Studies

Wiley

• Middle East Policy (2011 Impact Factor of 0.218)
• Digest of Middle East Studies

Middle East Institute

• The Middle East Journal (2011 Impact Factor of 0.692)

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Also two new journals are considerable. First,  Journal of Middle East Women’s Studies (JMEWS) published by Indiana University Press on behalf of the Association for Middle East Women’s Studies. Second, New Middle Eastern Studies, a new graduate e-Journal published by The British Society for Middle Eastern Studies (BRISMES).