Yes, exactly. The whole problem with F/A on is that it stabilizes the ship. Any control input you give, the F/A is trying to mitigate and stop. That means that your ship is basically fighting you all the time.
With F/A off, every input is unhindered. That means the ship is more responsive, but also you have to learn to counter your inputs yourself to stabilize your ship. That is the hardest part and, like your real flying, is completely up to your muscle memory.
Good luck, if you're going to try. It will definitely take you a couple of days, but it's a REALLY cool skill to have.
One thing I would recommend is to actually try it with a less nimble ship. Something like an Adder is a great ship to learn it in, because it isn't as twitchy as a Sidey or an Eagle.
As for the thrusters - you will either need to put your throttle to full range (That means the "0" is in the middle and you have full forwards/backwards control over the range of your throttle lever, or you'll have to bind the "thrust forward" and "Thrust backwards" controls, just like you have the lateral and vertical thrusters.