The train was Ras' doing, and as a trained ninja master type Batman left him to his consequences - and it would seem Ras accepted the defeat.
Joker's a mad man/possible genius who would have died precisely by Batman's hand at that construction site. Not to mention Joker had that in mind as a posthumous 'I told you so' to Batman should he kill the Joker. Batman knew this and that may helped him stay on point.
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