I think you should first convince yourself that RT does what it should be doing. We cannot suggest to people to use algorithms that we haven't first tested heavily and understand deeply. I am personally not familiar with RT so  I cannot be much of a help here. Can you think of a plan on how to answer the question "Why RT does badly with these data"? Do you have anyone in mind who could help you with this? Have you tested against other software that implement the RT?