Spontaneous phase separation is a promising strategy for the development of novel electronic materials, as the resulting well‐defined morphologies generally exhibit enhanced conductivity. Making these structures adaptive to external stimuli is challenging, yet crucial as multi‐state reconfigurable switching is essential for neuromorphic materials. Here, a modular and scalable approach is presented to obtain switchable phase‐separated viologen‐siloxane nanostructures with sub‐5 nm features. The domain spacing, morphology and conductivity of these materials can be tuned by ion exchange, repeated pulsed photo‐irradiation and electric stimulation. Counterion exchange triggers a post‐synthetic modification in domain spacing of up to 10%. Additionally, in some cases, 2D to 1D order‐order transitions were observed with the latter exhibiting a 7‐fold decrease in conductivity with respect to their 2D lamellar counterparts. Moreover, the combination of the viologen core with tetraphenylborate counterions enables reversible and in situ reduction upon light irradiation. This light‐driven reduction provides access to a continuum of conducting states, reminiscent of long‐term potentiation. The repeated voltage sweeps improve the nanostructures alignment, leading to increased conductivity in a learning effect. Overall, these results highlight the adaptivity of phase‐separated nanostructures for the next generation of organic electronics, with exciting applications in smart sensors and neuromorphic devices.This article is protected by copyright. All rights reserved