In April 1934, during a crossing of the continent, Macon was forced to climb to 6,000 ft (1,800 m) to clear mountains in Arizona. As the ship's pressure height (the height at which the gas cells' pressure would equal or exceed ambient atmospheric pressure) of 3,000 ft (910 m) was exceeded, a large amount of helium was vented to prevent the cells from leaking and eventually rupturing due to the increasing positive pressure differential at increasing altitude. To compensate for the loss of lift from venting, 9,000 lb (4,100 kg) of ballast and 7,000 lb (3,200 kg) of fuel had to be dumped. Macon was thereafter being flown 15,000 lb (6,800 kg) "heavy" and was operating at full power not only in order to have sufficient dynamic lift, but also to have enough control to fly in the severe turbulence through a mountain pass near Van Horn, Texas. Following a severe drop, a diagonal girder in ring 17.5, which supported the forward fin attachment points, failed. Rapid damage control by Chief Boatswain's Mate Robert Davis repaired the girders before further failures could occur. Macon completed the journey safely but the buckled ring and all four tailfins were judged to be in need of strengthening. The appropriate girders adjacent to the horizontal and lower fins were repaired, but the repairs to the girders on either side of the top fin were delayed until the next scheduled overhaul, when the adjacent gas cells could be deflated.
On 12 February 1935, the repair process was still incomplete when, returning to Sunnyvale from fleet maneuvers, Macon ran into a storm off Point Sur, California. During the storm, the ship was caught in a wind shear which caused structural failure of the unstrengthened ring (17.5) to which the upper tailfin was attached. The fin failed to the side and was carried away. Pieces of structure punctured the rear gas cells and caused gas leakage. The commander, acting rapidly and on fragmentary information, ordered an immediate and massive discharge of ballast. Control was lost and, tail heavy and with engines running full speed ahead, Macon rose past the pressure height of 2,800 ft (850 m), and kept rising until enough helium was vented to cancel the lift, reaching an altitude of 4,850 ft (1,480 m). The last SOS call from Commander Wiley stated "Will abandon ship as soon as we land on the water somewhere 20 miles off of Pt. Sur, probably 10 miles at sea." It took 20 minutes to descend and, settling gently into the sea, Macon sank off Monterey Bay. Only two crew members were lost thanks to the warm conditions and the introduction of life jackets and inflatable rafts after the Akron tragedy.[18][19][20] Radioman 1st Class Ernest Edwin Dailey jumped ship while still too high above the ocean surface to survive the fall and Mess Attendant 1st Class Florentino Edquiba drowned while swimming back into the wreckage to try to retrieve personal belongings. An officer was rescued when Commander Wiley swam to his aid, an action for which he was later decorated. Sixty-four survivors were picked up by the cruiser Richmond, the cruiser Concord took 11 aboard and the cruiser Cincinnati saved six.
Eyewitness Dorsey A. Pulliam, serving aboard USS Colorado, wrote about the crash in a letter dated 13 February 1935:
Tuesday it was so rough, and with the rain, we had an awful time getting along. We had gunnery drill Tuesday and more fleet maneuvers. The Macon came out about 1 pm Tues. to maneuver with the fleet and to enter Frisco with us this morning. The Macon came out in the storm not knowing that she would never get back to land. The Macon circled high above the fleet all the afternoon, and about 6 o'clock, radio messages began coming in that the Macon had had casualties and would have to land. The C.C. of the fleet radioed all ships in company with us to go at full speed for the wreckage. The crew abandoned it as soon as it hit the water, and all were saved except two. There were 83 men in the crew. The wreckage sank within a few minutes after it hit the water. We lingered around the spot where it sank looking for any parts which might be floating around. The search lights on all ships were combing the waters all through the night. The crew to the Macon were floating around in rubber floats and almost froze to death. I had to read about the Akron disaster, but this one I witnessed. The commander Clay had just been transferred to the Macon from this ship. This may contradict with the papers, but this is straight. There was an explosion in the tail and they could not control it.
In another letter, dated 16 February 1935, he wrote:
I guess that you all read all about the wreck of the Macon. Well, the papers out here were full. I guess the Navy sunk about 3 million dollars there in about 20 minutes. The people will have to pay that back in taxes. It sure was a pity that the Macon had to sink. It sure was pretty sailing around when the sun was shining on it. There sure was plenty excitement on board here that night. Everybody was trying to see what had happened. When the thing hit the water, the gas caught on fire and burned almost all night on the surface of the water after the bulk of the wreckage had sank. The Macon was supposed to go to Hawaii in May. They had started fixing up a field for it.
Macon, after 50 flights since it was commissioned, was stricken from the Navy list on 26 February 1935. Subsequent airships for Navy use were of a nonrigid design.