The difference in tone between KT66 and KT88 is Major.
Speaking of the clean tone only since usually distortion is created in the preamp in Marshall designs, the difference is quite similar to the difference between 6V6 and 6L6 except more pronounced. KT66's produce a very balanced tone from bass to treble and has strong upper mid which is referred to as chime or sparkle the KT88 is the opposite. While it does have a great upper mid the same as the KT66, but the KT88 has such a strong bottom the sparkle is not readily as noticeable.
Running both hard the KT66 would be a framing hammer hitting the chest, whereas the KT88 would be a 2 pound hammer. The difference is readily noticeable since it has much more bass extension.
I wired the OT both ways and UL provides a much more fluid, smooth feel. Problem is it can be rigid feeling according to the transformer. I prefer the Dynaco replacement UL over the one Hammond sells and I have used both. The last one I built I used a a complete set from triode here:
http://triodeelectronics.com/mk3trbuwfrch.htmlUsing this set with KT88 and SS rectification will put loaded plate voltages 560v, but with KT120 it drops to 520's.
I like this best so far. The Hammond 1650R is used weighs 12 lbs and is very stiff and the 1650N will get hot if cranking the amp, but it has a better feel.
I have a jtm45 that originally ran KT66 and I switched it to kt88 because I have quite a few of the tube. The only difference I noticed running at lower voltages is you need to brighten the amp up at lower volume. Tweaking would take care of it as jtm45 can be dark anyway.
A LarMar PPMIV is great as it seems to simply decrease headroom. I use Gold Lion Chinese KT88 and they hold up well and they sound really nice. If you want to keep the power section clean and full and jangley the KT120 work fine, but if you want to get the power tubes distorting (be in another room) the KT88 are by far the best choice as the distorted tone of the KT120 is very harsh, but they will deliver the best clean signal and react very well to pedals and preamp overdrive and an even stronger bottom end. Think killer metal.
All of these experiences are with a driver 12Ax7 and no negative feedback.