I disagree. I'll admit I don't understand the concept of "plugging", so perhaps everything I believe is wrong.
You wrote that the gas engine "comes on to stop the vehicle without using mechanical brakes." How is that possible? The engine is sometimes connected to the wheels through the Engine drive clutch only when the car is traveling at speeds greater than 45 mph (or 42 mph with my Clarity), so the engine has no way to slow the car at lower speeds when it starts running in response to regen braking with a fully charged battery.
The Clarity never allows the battery to charge to its nominal 17 kWh because fully charging a Li-Ion battery--especially for a long time--is reportedly not good for its health. So the Clarity protects its battery by not allowing either EVSE charging or regen-brake charging to charge the battery beyond its preset buffer. Members of this forum have reported the battery can accept up to a maximum of about 14.1 kWh while charging. There is also a bottom-end buffer below which the Clarity will not allow the battery to discharge, so the maximum charge is 14.1 kWh plus the size of that bottom-end buffer, but always less than 17 kWh.
So why does the engine start up in response to regen braking when the battery is fully charged? One clue is that when the battery is fully charged with Honda's lesser i-MMD hybrids, they use the excess energy coming from regen braking to power the starter motor/generator to spin the engine after shutting off the engine's fuel injection and ignition systems. Why doesn't the Clarity do that, too? Perhaps because the Clarity is a heavier car and more energy needs to be dissipated. My theory is that the starter motor generator in the Clarity is actually fighting the rotation of the powered-up engine to dissipate more energy than the "dead-engine" technique used by the lesser i-MMD hybrids. I could be wrong. I'm hoping expert sleuth
@Ray B will discover a paper written by Honda engineers that explains this process.