I am not familiar with differences between the syllabi, but my assumption is that the techniques on the jujutsu scroll can be performed with aiki, and that if I were to watch Konda Sensei perform them at an embu, he would be performing them with aiki.
Do I have that wrong?
Let me be sure to state up front that I am not a DR practitioner, nor do I claim to be an expert in that art (so any who are, please feel free to correct any errors I make), but the basic answer to your question is... yes. DR jujutsu can be done with aiki too (but then it becomes aikijujutsu technically, no?) or it can be done without aiki... but even if done without aiki it's still jujutsu with the "ju" principle in place and active.