Hi,
We are using Alignment option often and also in some cases we using multi align too.
why not, we select all the elements which have to be align with destination element.
Multi - Align
Solution:
Instead, we can drag it like this below image, we can save several click times and we can drag, what the particular we want to align.
And also, while ALIGN (AL) we can use by selecting SIHFT key + DRAG to deselect the one, not to align
Drag multi align
NOTE:
This is just an idea and yet to do programming, and can add in REVIT by default for future users to save time n even more user friendly. Not only for Alignment which may applicable for similar multi options like multi copy, multi cut, multi join and etc..