What locks employ these countermeasures?

Short answer: very few... at least at present

Trap pins
M&C (Mitchel & Collin) "Antiklop" model

Shallow drilling
CES (Carl Eduard Schulte) VA5 & VB7 models

Top gapping
Master and American padlocks can often be re-pinned

Kwikset
"Smart Series" line. Includes biometric options, etc.