There's no doubt that your experience is typical; Legacy engines have far better minimum/"crawl" speed performance than MTH engines. The real question is why that is so. It must be some basic characteristic of the MTH system because I've had the same experience with PS1/2/3 models. I suppose it could be the gearing or tach reader but my guess is that there's something else in the electronics that causes it.
That said it doesn't make all that much difference to me as I have got used to running my MTH engines at no less than about 8 scale MPH (according to the speed readout on the remote) and the PFA feature has more play value than Lionel's sequence control. But Lionel engines are definitely the majority of what I have.