Sounds strange to me too (meaning that I haven't experienced your mentioned problems yet, ddo2). Before and after the flight model mod the 727 was a good handflyer and worked well on the precision approaches.
I recently did some touch&go training in the way I described earlier in this thread and everything worked fine, following the speeds in the additional docs (which are a great source together with using the FDE mod).

Can you try again or post your payload layout maybe?
I often had a fully loaded cargo -200 in the air (all containers are in), and around 45% of fuel, giving me around 69 tons to handle.
My MAC was in the operational range then and I was able to really follow the docs for landing her. Compared to handflying the 707, the 727 is a real charming planing while her older sister requires some work on the yokes.
From what I know, this matches the character of those two planes. 727 = fun, 707 = work.

Here's a quote from the fine docs regarding the 727 nose down tendency on the approach.

Quote:

BEFORE LANDING/APPROACH The speeds recommended for each flap setting allow considerable margin above stall for normal maneuvering and place the airplane in the most desirable attitude during final approach (about 3° to 4° nose-up).  Flap extension on the 727 pitches the airplane nose-down, especially when going from 15° to 40° of flaps.  The use of Ref +10 throughout final approach to touchdown will normally provide the most stable flight and desired airspeed.  When gusty surface winds are affecting the airspeed needle, add the airspeed needle bounce to the Reference speed; e.g., if needle is bouncing plus or minus 10 knots and Reference speed for existing gross weight is 120 knots, fly 130 knots as adjusted approach speed.  Total airspeed correction shall not exceed 20 knots. BEFORE LANDING BEFORE DECELERATING FROM: START LOWERING FLAPS TO: 200 kts 2° 190 kts 5° 160 kts 15° 150 kts 25° 140 kts 30°/40° Add 10 knots to above if aircraft is above 152,000 lbs; add 20 knots if aircraft is above 176,000 lbs.