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Seems like a good idea.
I'd assume it would register deceleration the same as a downward slope. You know what assumptions are worth, though.
Not sure why you wouldn't want it charging at a light. Yes, it would use a bit more gas...but at that point, 100% of your gas is going to waste. At least you'd be getting a bit of something back for it. Killing the engine would kill the alternator - and everything else - from wasting gas. Coasting with the engine on would amount to the same thing.
You could get creative and use the throttle position sensor as part of the information the Arduino is looking at. Could take it farther and figure out how to make the alternator pout out lower voltage (12.6-13) when at a light or engine-on coasting, go full ham when braking.
Personally don't see "regen braking" worth the effort with a regular alternator and a 12v lead battery...they just don't accept a quick, high-current charge easily. The right kind of lithium might. Bigger lead would accept a charge faster, but then you're carrying more weight.
YMMV.
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