Thinking a bit about the UI, if embedded in the SmartCopy extension: (which, I agree, may be a way to 'pull in' more active Tree Builders as well as creating a whole new set of "Tree Quality Auditors") ....
If there are two 'tabs' (Smart Copy vs. Consistency Checks) in the configuration panel, maybe have a top-level 'disable' tick-box for the consistency checks so it can be disabled if one temporarily is having performance issues in accessing the "SmartCopy Host".
Probably something should change on the 'icon' when the consistency checking is enabled / disabled so one doesn't forget they turned it off the day before because of performance issues.
re: persistent "closing" of consistency checking.
That's a tough issue, I think.
-- in the long run, it should be part of the Geni database, similar to a data conflict ("yes, the age is over 125, but that's known based on the best references") ... and maybe probably really could be best as an "acknowledgement" of the potential issue (e.g. "Spouse age difference > X years").
-- barring that for the present time, maybe it should be a user-config option to store "close/acknowledge" info locally? Thus, if I'm on a brain-dead (RAM limited) machine, I might turn of the local persistence, but on another machine I'll turn it on. (Turning off, then back on, could act to "clear it".)
-- version 1 of the over-ride/inhibit probably should start a just the per-profile level, not all the detail items for each profile!
-- the 'possible issues' injection should work on Profile as well as Tree Views, I'd hope.
Hmmm ... for some "reference" pages, it'd be really nice to "flag" some inconsistencies on the Smart-Copy panel itself, so one can perhaps get a better sense of whether the "data-about-to-be-copied" might degrade the quality of the Geni profile(s).
-- these might include items such as "will reduce the detail of dates", "fewer location details fields", etc.
-- Maybe, in the SmartCopy panel, the textual description of the 'potential issue' could be in a "tool-tip" kind of hover popup?
(more later on dates ... got to think about that a bit more ...)