Aircraft systems are the integral part of the naval operations. These systems have been making great contribution to all kind of naval tasks and operations since previous century. On the other hand, developments in Unmanned Aircraft Systems make Naval Forces replace manned aircraft systems with unmanned ones. Consequently, utilization of Unmanned Air Craft Systems in maritime domain contributes to almost every kind of naval operations and brings new opportunities such as persistent intelligence, surveillance and reconnaissance, conducting dangerous tasks etc. On the other hand, these systems yet bring some issues such as difficulties in take-off and landing activities, and interoperability etc. In this paper, utilization of Unmanned Aircraft Systems in naval operations is evaluated in detail in terms of challenges and opportunities, and solutions for challenges are introduced.