An alternate, shorter opening sequence compiling footage from all of the show's seasons is shown during the Jetix airings on the shows (though Season 2 episodes have the original Season 2 intro.)
After the terrorist attacks on the USA of 11 September 2001, ABCFamily heavily edited the episode "Day of the Chameleon" to remove the World Trade Center, buildings, parts of the NY skyline, a helicopter crashing into a building, as well as exploding and falling to the ground below, among other shots... making the first scene virtually implausible to comprehend as it was originally intended. Dialogue was re-looped to match the new, shorter, version. Also, some production credits from the episode are missing as well, due to their being on screen during the omitted footage.
Syndicated versions of the pilot episode, "Night of the Lizard", omit a sequence in which the Lizard accidentally slams into his wife with his tail when turning.