When Wayne and his wife are murdered in a street mugging, Bruce is inspired to fight crime in Gotham as the vigilante Batman.

[2] Wayne was revived in Geoff Johns' alternate timeline comic Flashpoint (2011), in which he plays a major role as a hardened, more violent version of Batman, whose son was killed instead of his wife and himself, leading both of them to become the altered reality's counterparts of Batman and the Joker respectively, and dies again by the end of the storyline.

Sure enough, the costume restores Moxon's memory; the former crime boss panics, believing that Thomas’ ghost is attacking, and flees into the streets and is struck and killed by a truck.

This was retconned once more in the pages of Superman/Batman, where Superman, hoping to reverse some universe-altering change in the time streams, lands in a version of Gotham City in which Thomas never died, finding him giving out Halloween candy in the original Batman costume.

In many of the modern interpretations of the character, such as those by Frank Miller and Jeph Loeb, Thomas Wayne is portrayed as having been a somewhat distant, stern father, bestowing more kindness and generosity on his patients than his own son.

However, DNA testing proved this to be false, and Bane's real father was recently revealed to be King Snake.

In Batman: The Long Halloween, a flashback reveals that Thomas Wayne saved the life of gangster Carmine Falcone.

Thomas wanted to take the younger Falcone to the hospital, but Vincent insisted that nobody know about the shooting; the surgery was thus performed in the dining room with Alfred assisting.

Years later, Bruce contemplates whether Gotham would have been better off had his father let Falcone die; Alfred replies that Thomas would have helped anyone in need.

In Superman/Batman #50, it is revealed that, while on a drive with a pregnant Martha Wayne, Thomas witnesses a strange object fall to Earth.

This tragedy shocks Gotham and leads to Park Row (the street where it occurred) being labeled Crime Alley.

In the ongoing follow-up series, Batman & Robin, it is suggested that some, if not all, of these allegations have begun to circulate around Gotham; Dick Grayson and Damian Wayne attend a high society function where a few party guests vaguely mention the existence of rumors surrounding the family, and Dick tries to tie Bruce's absence from the public eye with being occupied with clearing his family's reputation.

This version is the chief physician of the Privy Council who opposes Oliver Cromwell's worldwide theocratic government An alternate universe variant of Thomas Wayne appears in Batman: Earth One.

[9] An alternate universe variant of Thomas Wayne from Earth-Two who succeeded Bruce as Batman using the Miraclo pill appears in The New 52.