No actual way to counter FTG...
The only way would be for you to be faster than Minato... no chance, even if you dodge his FTG attack, there is no way for you to hit him, he would just teleport again.
Have a S/T jutsu of your own... or destroy the Kunais... again not very useful.
I don't see any other way... even if you know to which kunai he would teleport, everything happens so fast, you wouldn't have the cahnce to do a thing.
An uzumaki might be able to pace a special seal on one of those Kunais so that when Minato teleports to it, he gets trapped, the seal makes him unable to move or something like that.... just an idea.