A key challenge that will face nanotechnologies will be controlling the uncertainty introduced by stochastic self-assembly. In this paper we explore architectural and manufacturing strategies to cope with this uncertainty when assembling nanoarrays, crossbars composed of two orthogonal sets of coded parallel nanowires. Because the encodings of nanowires that are assembled into a nanoarray cannot be predicted in advance, a discovery process is needed and specialized decoding circuitry must be employed. We have developed a probabilistic method of analysis so that various design strategies can be evaluated.