Greetings, welcome to the forum.
That's odd, what voltage setting are you running your ProVari at, and which coils are you using (oHms)? Any chance that the PT3 bottom pin isn't connecting properly?
I don't use clearomizers often, but by coincidence i happen to have a Davide (single coil model) sitting atop my Mini at the moment, and it is working really well. The Davide is identical to a PT2 (though possibly with fewer QC issues).
-- Glenn
Edit; Hold on a second, this could be a dual coil issue, which in turn possibly has something to do with the ProVari amp limit. You might want to re-ask this questions on the APV->Provari subforum (which is being relocated to another part of ECF shortly).