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I put a Li-Ion on my Triumph chop last year an it's served me well. Although I did have to upgrade the charging system to a more stable three phase as the single phase system would probably have killed it and melted the Zener diode...A couple of my Harleys have AGM batteries, though one of them didn’t start off with one.
The one I’m building has a Li-on battery.
Back on topic, AGM are good for trips where battery demand is high such as short trips or lots of stop/start in towns as they can handle deep discharge better than flooded batteries and can recharge much quicker.
A modern car charging system should be able to handle the swap with no problems, possibly the ECU may need to be told but I'm not 100% sure as I've never really gone this deep into car charging systems. As long as you have something more advanced than a dynamo you should be OK.
A good battery with no load should be 12.5 volts, after start up should be charging at around 14.5 volts but once the battery has regained its charge this may drop to 13.5 volts. These are not hard and fast figures but a ball park.
Here's a decent chart to refer to: