I am asking this because I had a chain of 8 Kangaskhans, and then one fled. Will my chain continue if I obey all the rules again, or will it end because of one tiny flee?
The following break the chain
Running from one of the Pokemon species you're currently in a combo for (you can run from other species to maintain the chain)
Letting a Pokemon run away from you, which happens if you take too long to catch it.
Catching a Pokemon of a different species to the one you're currently chaining
Saving and exiting the game