Dear Hao,
You can "correlate" variables between the phases if you want. each phase has a bunch of "parameters" (like lattice parameter, ADP of the Na ion, etc.). We assign these to "variables" using the "@56" method, so if we wrote @56 in the a-lattice parameter box of the gui, that would assign the a-lattice parameter of that phase to the variable number 56.
If you want to correlate parameters in different phases, you can connect them through the variables, so you could connect the b-lattice parameter in phase 2 to the b-lattice parameter in phase 1 by setting the both to variable number 34.
You can also use mathematical expressions, so you can set the occupancy of atom Na to @45 and the occupance of a different atom, K for example, to 1-@45 and then whenever one goes up, the other goes down.