It says in the article under the bug sections that not killing the Powder Gangers in the cell blocks might be the cause of Mr. New Vegas and the ending epilogue not recognizing the NCRCF was retaken, however I meticilously killed everyone in each cell block before I joined the NCR in the administration building, as well as the visitor's centre and all the towers.
I also killed everyone in the administration including Eddie, the doctor and Scrambler with the assistance of the NCR, I then reported to the Sgt. who was still alive along with all the other troops, got a complete in my quest log and everything; the NCR even remain in the NCRCF, they sleep there and idle there now. Eating and sitting on the chairs and everything.
However Mr. New Vegas still says the NCRCF retake was a failiure on the radio, unfortunately very bugged. Has anyone successfully gotten the ending epilogue where it says it was retaken as well as confirmation from Mr. New Vegas on the radio?