Which type of "heavy duty" shockies did you use?
If the front has sagged it could be too close to the bump stops. There is a formula in the manual to get it back to factory height. Would normally require a wheel alignment also. Or you could just go for somewhere in the middle of travel (between bump stops).
If the rear has sagged there's probably not much you can do other than replace the springs with a good after market set (the factory springs are soft and usually sag).
Body mounts can make a surprising difference for a while, but once they settle in (say in around 12 months) they will be the same as always.
People usually give them a small lift via replacement rear springs and adjusting the torsion bars, with a good set of shockies this can make for a much better ride. Though it is a workhorse type ute (a somewhat "agricultural" one at that) to begin with and I'm not sure they handle better than from factory this way (ie. people usually lower cars for better handling) but they can be more comfortable.