This is a long-standing procedure where I fly.
On a turn-around, we just leave the flaps at 1, because we know for sure that neither ELEC power and the ADIRS will remain on at the outstation. When back at base, where the ADIRS might be de-powered for any length of time for whatever reason (gnd pwr tripping, maint, night stop, etc), we simply retract the flaps.
And yes, if you need to do a full alignment of the ADIRS, the flaps will need to be retracted.