"Question: if I miss reps for a cycle and reset, do I go back to the previous TM (go back one cycle) or do I drop back three? "
You should never miss reps unless you have a flu, cancer and lost a limb 10 minutes before the gym. You should always be able to get 5 reps on your 95% day, and they should be fast and strong.
The TM is nothing but a tool to help regulate your training - it's not about how strong you are. At some point, people will believe me about this. A friend of mine just squatted 775 with a 630 TM. There are countless examples about this - and the sooner you accept it, the sooner your lifts go up, your recovery is better and your bar speed is optimal. If you are looking to "trash" the body, use stuff like weight vest chins, dips, push-ups, ab wheel, sled work, Prowler, etc.