Below is the clear cut conclusion by NTSB. I don't know from where suddenly the phugoid damping has popped up. Had the speed been correctly maintained the AOA would have remained outside the alpha prot and better flare would have resulted.
However, FDR data indicated that the airplane was below green dot speed and at VLS or slightly less for most of the descent, and about 15 to 19 knots below VLS during the last 200 feet.
The NTSB concludes that the captain’s difficulty maintaining his intended airspeed during the final approach resulted in high AOAs, which contributed to the difficulties in flaring the airplane, the high descent rate at touchdown, and the fuselage damage. (See additional discussion in section 2.7.1.)