"Political stars in Turkey aligned against the US... on Russia, Sudan, Hamas, & Iran, ever since the 2003 Iraq War..."

WINEP has some policy 'recommendations' to President Obama, here

"...Make EU accession the leitmotif of U.S. policy. ... Ankara's EU membership talks are stalled due to French objections, as well as the slow pace of Turkish reforms. As the president renews transatlantic ties, he might consider using his dialogue with the French president to convince Paris to adopt a more flexible position on Turkey's EU accession -- a tall order even for Obama -- though the benefit for Paris is that Turkey would lift its veto on France's return to NATO's military command structure. 

Treat Turkey as more than a Muslim country. Since the Iraq War, U.S.-Turkish relations have been focused on the Muslim Middle East, particularly Iraq. This development has come at the expense of previous U.S.-Turkish cooperation in the Caucasus, Black Sea, Central Asia, and within Europe and NATO. Turkey is more than just a Muslim partner for the United States. Washington's singular focus on Middle East issues has empowered a Muslim vector in Turkish foreign policy, stimulating an exclusively Muslim identity among Turks at the expense of European and pro-Western identities. Obama has a grasp of this issue; news reports suggest the president is not going to deliver his "address to the Muslim world" from Turkey. According to the White House, Obama's Turkey stop is not linked to his campaign promise to visit a Muslim country during the first 100 days of his presidency. Washington needs to cooperate with Turkey on non-Muslim issues if it wants to keep Turkey's non-Muslim foreign policy vectors alive and various Turkish identities thriving.

Emphasize NATO as the benchmark for Turkish foreign policy. Turkey has participated in every NATO operation since it joined the alliance in 1952. When Obama builds consensus in NATO, such as a common stance on Iran, he can and should expect to find Turkey on board.

Build an economic component to bilateral ties. Although the United States and Turkey have been military and political allies for six decades, they have not built comparable economic ties. Because of this, each time U.S.-Turkish relations have faced political problems, as they did during the Iraq War, official cooperation and amity have nearly collapsed. In 2008, the U.S./European share of Turkish trade dropped to less than 50 percent, and Russia became Turkey's top trading partner for the first time. 

Partner with Turkey on energy security. ... to reach the energy fields of the Caspian Sea basin and to build pipelines, such as the long-projected Nabucco line, ..."