Systems and methods for navigating a three-dimensional (3D) media guidance application are provided. A first selectable media guidance object may be displayed on a screen that when viewed through the stereoscopic optical device may appear in a first plane. A second selectable media guidance object may be displayed on the screen that when viewed through the stereoscopic optical device may appear in a second plane. The first and second planes may be perceived to intersect an axis normal to the display in different locations. A user selection of at least one of the first and second selectable media guidance objects may be received. An action of moving a cursor in 3D space or selecting one of the selectable media guidance objects displayed in the 3D space may be performed based on the user selection. The user selection may be performed with an input device having an accelerometer.