We investigate the space-time evolution of electromagnetic fields and their azimuthal fluctuations, along with their correlation to the initial matter geometry defined by the participant plane, in Ru + Ru and Zr + Zr collisions at $\sqrt{s_{NN}}=200$ GeV. In the presence of finite electric ($\sigma$) and chiral magnetic ( $\sigma_{\chi}$) conductivities, we observe partial asymmetry in the spatial distributions of the electric and magnetic fields compared to Lienard-Wiechert (L-W) solutions, with a deceleration of field decay in both isobar collisions. Additionally, we find significant suppression in the correlation between the magnetic field direction and the participant plane when finite conductivities are included, highlighting the crucial role of medium properties, such as conductivities, in shaping the magnetic field-induced observables.