Simulink does not set any reference point. The center of pressure is the location where the resultant lift and drag forces act, this can be any general moment reference point as long as the rest of the model follows the same reference point. Sp the center of gravity should be measured from the same reference point. Here's some documentation and example links to help:
'Aerodynamic Forces and Moments' Block: https://www.mathworks.com/help/aeroblks/aerodynamicforcesandmoments.html?searchHighlight=moment+coefficient&s_tid=srchtitle_support_results_3_moment+coefficient#mw_15bbc765-f829-4aff-8300-80496e16a474
Example model: https://www.mathworks.com/help/aeroblks/hl-20-with-flight-instrument-blocks-and-visualization-using-unreal-engine.html
In the example model, the 'Aerodynamic Forces and Moments' block is used in 'Forces and Moments' sybsystem inside 'HL20 Airframe' subsystem.