"How did the Clinton administration come up with this wild and crazy idea of supporting the Muslim side of a Balkan Holy War? Why did it sound like a good idea at the time?" 
President Clinton's waging of the 1999 air war for European Muslims against Christian Serbs in Kosovo followed the similar logic of giving North Korea a free U.S. taxpayer paid nuclear reactor, exchanging rocket technology for campaign contributions from Red China, and sending in tanks to burn out Branch Davidian Christians in Waco.
Which is to say, he was waging large-scale, global war against the Judeo-Christian America of his father (whoever that was).
President Clinton's waging of the 1999 air war for European Muslims against Christian Serbs in Kosovo followed the similar logic of giving North Korea a free U.S. taxpayer paid nuclear reactor, exchanging rocket technology for campaign contributions from Red China, and sending in tanks to burn out Branch Davidian Christians in Waco. Which is to say, he was waging large-scale, global war against the Judeo-Christian America of his father (whoever that was).
One of the main reasons for this war was to get Monica off the front pages.