Moving damage counters doesn’t count as repairing or damaging either character.
If Optimus - Legendary Warrior attacks in bot-mode with less characters than your opponent and you choose to repair a character upgraded with Toolbox, will you repair 4 because there are two times, or is it just 3 because it is one time repairing?
[Source: WotC] 
It's repair 1 "then" repair 1. So Toolbox will change it to repair 2, then repair 2, for a total of 4.
How does Vesatility interact with Toolbox? Would it effectively double the impact of
Versatility, since each battle icon colour you flip is a separate instance, or does it just add 1 to the total being repaired?
[Source: Aequitas]
Toolbox only adds 1 to the total being repaired. The 'for each' in
Versatility is looping to calculate the amount of repair that will be done, then the repair is applied as one event.
Raider Ratbat works the same way.
Wave 1's
Chop Shop however works the other way. It has the repair inside the for each, allowing Toolbox to apply for each repaired damage.
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