BF 3 is CPU heavy due to the physics in it. For multi GPU setups you'll need something with more than 4 threads (2600/2700 and so on) in order for the GPU usage to stay up and avoid some low FPS. Also, Frostbyte uses more of the CPU compared to ArmA's 2 engine.
Although the maps are smaller, the game looks and runs much better and more importantly, the control of the character and the handling/feeling of guns, how they shoot and the way they look, are far ahead of ArmA 2. There is really no point in comparing those two. Of course, a modded version of ArmA can add some nice stuff and take back some territory, but in the end is not a very smooth experience, but it has it's own strong points that still keeps us playing it.
Regarding this Alpha, personally I wouldn't expect much of an improvement of performance in the final version. Some tweaks here and there, but the overall numbers should be the same. All the games I've played so far (not much, but still) that had a pre-launch testing time, ran +/- the same in the final version. If BIS is the exception from this rule, than bravo!