Pete, I'm not familar with retorguing flanges on a routine step. When we would chill down the ethylene plant to operating temperatures, we would constantly walk the units looking for any signs of flange leakage from the thermal cycle concentrating on any flanges broken during the shutdown.
Any leaks were tightened up online (luckily, we never had any leaks we couldn't stop this way). We didn't go through the entire unit again and retorgue everything although I could see the value of it when you are chilling equipment down from ambient to as low as -160C at the coldest.
Let me check with a couple of contacts at the local refineries and see what their practice is during a T&I.