Actually, it's even worse. Due to historical developments, the Syrian Brotherhood is more radical than its Egyptian counterpart. To maintain illegality under President Husni Mubarak, for decades the Egyptian Brotherhood had to restrain itself. Those who wanted violent revolution and faster action left to form separate Salafist groups. The Egyptian Brotherhood today sometimes cooperates with these groups--whose party finished second in the parliamentary elections--but they are also rivals.
In Syria, however, the underground Brotherhood had no incentive to hold back. Consequently, while there are certainly a lot of non-Brotherhood Salafists, there are also a large proportion of really violent, impatient, open extremists in the Syrian Brotherhood. To do a simple analogy, the Syrian Brotherhood is more like Hamas than those slick Brotherhood leaders in Cairo who care to fool the West with their honeyed words. A Brotherhood-run Syria, with Salafists egging on the regime, would be an instant nightmare.
What is happening is that the Turkish regime and Qatar want a radical Islamist Syria and are getting the Obama Administration's help in bringing it about, an outcome supplemented by Saudi aid to America's enemies.
Yet now there are clearly different groups in the opposition, as Abuhamid explains in detail. To give one example, the powerful Syria Martyrs' Brigade is traditionalist but not Islamist, while the Islamic Front for the Liberation of Syria tells you its goal in its name. To compile a list of groups that will and will not get arms would be an easy task for the U.S. government.
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As if to outdo America, the French government is actually supporting for Syria's leader a loudmouth former regime insider of no proven talent who is a radical Arab nationalist and someone who the rebels loathe.
We also know, for example, that Islamist rebels massacred several dozen regime soldiers from a low-level unit that hadn’t been involved in any atrocities, because they did so right in front of nearby Iraqi border guards. Really nasty murders were committed by NATO-backed forces in Libya but that war—and the atrocities--came to an end fairly quickly and much less attention was paid. In Syria, a lot more attention will be paid, a lot more people killed, and it won’t end until hundreds of thousands of people flee.