I usually use the 2nd bank of sliders/rotaries to control specific functions on the DAW (or on specific VST effects) keeping the 1st bank for the Analog Lab.
About this thread topic, these are to me the differences:
1) Now it acts as a unified front-end to all VC5 instruments presets, including any presets you make on each of those instruments (something not possible on the previous Analog Lab).
2) GUI zooming, like all the rest of the VC5 instruments now have
3) Full instrument editing now happening inside AL2's GUI instead of on an additional window.
maybe there's more, but these are the ones that jumped at me