There's really no "balance" relationship between calcium and alkalinity. I'd likely just leave well enough alone. The Purple Up might be part of the problem. It has a bit of calcium in it, but no alkalinity, so it'd cause this sort of problem. Most of it is just fine sand.
Yes, that's not a useful part of the calculator. I wish I could remove it. It just relates back to someone's personal opinion of the optimal reef parameters.
What are your magnesium levels at now that your alk is "low"?