Subfloor over mortared rubble foundation.

I am finishing the basement in my sister's 1890's house. The mortared rubble foundation, although in good shape, is too "bumpy" of a surface for flooring, so I am building a subfloor. My plan is to place a heavyweight cross laminated vapor barrier on top of the foundation, use asphalt shingles for shimming, and fix pressure treated plywood directly to the foundation with concrete screws.
Code requires the ceiling to be 7', so I must keep the total flooring height under 1.5"-- needless to say I'm thinking thin. I will be installing either laminate or cork flooring, if she'll ever make up her mind.
Anything wrong with this plan? Need I treat the foundation with any kind of sealer before beginning? When installing the concrete screws, can I drill the hole directly through the subfloor and then install the screw, or will the resulting hole in the subfloor be too big for adequate support? Tips, tricks, or warnings?
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