After watching the movie, clocking in at just under 75 minutes, I'm pretty sure I have the complete list of cuts and changes made in Batman Beyond: Return of the Joker. Now, there's alot, actually close to thirty cuts. Here's the rather long list, longer than anticipated:

• 1st fight scene trimmed and altered. Dee Dee fight scene noticeably trimmed, as well as the "pan around" sequence.
• The scene showing the batarang beheading a Two-face dummy is cut out.
• "Putzes" changed to "Yutzes" during Joker intro scene.
• Bonk not shot, but gased, and dies offscreen, which is evident when his laughing stops.
• Becuase of the above, the whole "Dee Dee, take out the trash" and "Are you with me?" sequence cut.
• "I don't know why the boss wants a dreg like you outta the way, but a slong as it's fun" Chucko line cut, as well as the scene where he punches Terry. Also, punch from Terry to Chucko while on route to save Dana is cut.
• Dana's injuries downgraded to "one bump and a couple cuts".
• In Flashback, the usual Batgirl "hooker" contacts, last scene in THE ULTIMATE THRILL, are changed to a guy and girl.
• "Joker jr." laugh is cut extremely short.
• Batman's knife is digitally removed as he breaks from his bindings.
• The scene showing Batmanthrowing his knife at the Joker is cut.
• Batgirl/Harley fight trimmed by one punch.
• Joker dialogue altered from "After all the shocks and drugs took effect..." to "All to soon...".
• More than half of "OUR FAMILY MEMORIES" are cut, mainly the scene showing Joker pening the barbeque, grabbing voltage tongs, and shocking Robin.
• All blood from the movie is digitally removed.
• Joker no longer slashes Batamn across the chest and stabs him in the leg with a knife. The knife is digitally removed and just punches Batman. (Note: The leg stabbing is the cuase of the elder Wayne's limp)
• Joker's "Make me proud" changed to "Make him one of us."
• Batman's "Tim..." moan is cut.
• The Joker trips in water and is electrocuted, instead of being shot by an insane Tim Drake.
• Barbara's dialogue is altered from: "We buried Joker deep beneath Arkham..." to "...And for Robin's sake, he kept that night a secret...", therefore not directly mentioning Joker's death.
• Barbara's dialogue is altered from "..she helped him back to sanity" to "...she helped Tim back to himself."
• "Amy" sequence on the Wayne yauct (sp) cut.
• Jordan Price's dialogue changed from "...bunglers tried to kill Wayne" to "...bunglers tried to ice Wayne".
• Bruce's dialogue altered from "Robin did kill him" to "Robin defeated him".
• Tim Drake's dialogue altered from "Oh god, I killed him" to "oh god, I did it". Also, "I can still hear the shot" changed to "I can still hear his scream". And "I can still see his dead body" changed to "I can still see his frozen smile".
• Tim Drake's dialogue changed from "It's a killer" to "It's a doozy".

  and finally...

• "Bat-Fart" changed to "Bat-Koot".

  And that is all of them I noticed. I'm pretty sure that's all of them, but it's possible I may have missed one or two. There ya go. Over 25 changes.

  Fandom has up three great shots of three edited scenes in their original presentation. These shots contain HUGE SPOILERS and could spoil the movie for ya. You have been warned...
  
  Deleted Robin Scene
  Deleted Joker Scene
  Deleted "Joker Jr." Scene
  
  The website Batman: Yesterday, Today, & Beyond has alot of good pics of the fabled deleted scenes, so go check it out!
  
  There's still a chance we can see the uncut. Please sign this Petition in favor of the uncut movie.

  [Source: World's Finest]