The biggest problem is the 6000 HP engines used were both “clean sheet of paper” designs and had lots and lots of bugs to be worked out. The FDL and 710 engines are really just improved versions of old designs, which is why they are so reliable (relatively, anyway). Even given this, whenever EMD or GE would pu***heir engine design a bit, they always seemed to have some teeting problems. (the 950 RPM 645F engine and 4400 HP FDL are recent examples).
Had Conrail been left alone, they would have purchase a bunch more 5000 HP SD80MACs. They were pretty comfortable with the 20 cylinder 710 and very leary of the new engine designs. There is a market for 6000 HP AC locomotive. Two, 6000 HP AC units can do the work of 3 4000 HP (AC or DC) units in merchandise or intermodal service, but a reliable prime mover needs to be developed before any road goes for them in a big way (CSX was just plain stupid ordering all those 6000 HP GEs IMHO).