Throughout its run, "Batman: The Animated Series" focuses on episodic stories rather than a single overarching plot, so its "spoilers" lie in the tragic origins and fates of its characters. A key reveal is the nature of Harvey Dent's transformation into Two-Face. He is not merely a victim of an accident but suffers from a pre-existing dissociative identity disorder, with his darker personality, "Big Bad Harv," fighting for control long before the disfigurement that unleashes him completely. This makes his fall from grace a psychological inevitability rather than a simple accident.
The theatrical film, "Mask of the Phantasm," provides a crucial backstory for Bruce Wayne's early years as Batman. It reveals that he almost gave up his vow for a chance at a normal life with a woman named Andrea Beaumont. Her sudden departure broke his heart and solidified his commitment to becoming Batman. The film's major twist is that Andrea is the titular Phantasm, a mysterious killer targeting the mobsters who murdered her father. This parallels Batman's own quest for vengeance, but unlike him, she crosses the line and kills. The finale sees her disappear with the Joker, leaving Batman alone, forever wedded to his mission.
Another significant arc involves Dick Grayson's evolution. His growing frustration with Batman's demanding and emotionally distant mentorship leads to a falling out and his decision to quit being Robin. When he later returns as the independent hero Nightwing in "The New Batman Adventures," it signifies a permanent shift in their dynamic, from master and apprentice to equals. This arc culminates with Bruce finally showing his trust and respect for Dick as his own man. The series does not have a conclusive finale, but ends with Batman's mission continuing, suggesting his war on crime is a perpetual, unending struggle.