Over the years, the widespread utilization of electrokinetic flow through squeezed geometry in mechanical and bio-engineering has garnered significant attention. This research focuses on investigating the flow behaviour of magnetized micropolar carbon nanotubes (CNTs) ingrained blood in an arterial channel with a squeezed geometry, taking into account the influence of an electric double layer (EDL). The micropolar nature of the blood, which takes into account the rotational motion of the blood particles, is also considered. By employing compatible similarity substitutions, the model equations expressed as partial differential equations (PDEs) are transformed into non-linear ordinary differential equations (ODEs). The numerical solution of the transmuted system of coupled non-linear ODEs, accompanied by the suggested boundary conditions, is obtained using the Runge-Kutta-Fehlberg (RKF45) method along with the shooting scheme via the bvp4c routine in Mathematica software. Informative graphs and tables are presented to comprehend and elucidate the physical effects of crucial model factors on the flow system's dynamical characteristics and bio-physical entities. The graphical outcomes reveal that thermal distribution inflates with higher Hartmann number but dwindles due to surged electroosmosis parameter. With an increasing volume fraction of CNTs, a downfall in the entropy production rate is noted. The flow patterns for Hartmann number and squeezing parameter are presented and interpreted. The superiority of single-walled nanotubes (SWCNTs) over multi-walled nanotubes (MWCNTs) in enhancing the velocity, temperature, and irreversibility is established. This study significantly contributes to the understanding of micropolar blood dynamics and provides valuable information for researchers working in the field of biomedical engineering and nanomedicine.