The use of pre-operative CT and MR images for navigation during endo-nasal skull-base endoscopic surgery is a well-established procedure in clinical practice. Fusion of CT and MR images on the endoscopic view can offer an additional advantage by directly overlaying surgical-planning information in the surgical view. Fusion of intraoperative images, such as cone beam computed tomography (CBCT), represents a step forward since these images can also account for intra-operative anatomical changes. In this work, we present a method for intra-operative CBCT image fusion on the endoscopic view for endo-nasal skull-base surgery, implemented on the Philips surgical navigation system. This is the first study which utilizes an optical tracking system (OTS) embedded in the flat-panel detector of the C-arm for endoscopic-image augmentation. In our method the OTS, co-registered in the same CBCT coordinate system, is used for tracking the endoscope. Accuracy in CBCT image registration in the endoscopic view is studied using a calibration board. Image fusion is tested in a realistic surgical scenario by using a skull phantom and inserts that mimic critical structures at the skull base. Overall performances tested on the skull phantom show a high accuracy in tracking the endoscope and registration of CBCT on endoscopic view. It can be concluded that the implemented system show potential for usage in endo-nasal skull-base surgery.