Plausible though it sounds, the weakness of the hypothesis is that it does not incorporate all relevant evidence.
(A) Plausible though it sounds, the weakness of the hypothesis
(B) Even though it sounds plausible, the weakness of the hypothesis
(C) Though plausible, the hypothesis’ weakness
(D) Though the hypothesis sounds plausible, its weakness
(E) The weakness of the hypothesis which sounds plausible

What's wrong with E??

I think that "it" in E may refer to either weakness or hypothesis. Any comments on my reasoning.

OA after few explanations