Episode 3: Two shots were cut during the fight in the parking garage. First was when Renamon clawed at Galgomon's eyes, which drew a small amount of blood. Later in that scene, we see Galgomon's eyes scratched, but those with the dub have no idea how they got there. Second was the shots of Galgomon pointing his gun at Ruki.
Episode 26: When Ruki, Kenta, and Hirokazu emerge from the digital field, Hirokaku and Kenta are unconcious. Ruki put them together so it looks like they're kissing. Yeah, that scene was cut. Sailor Moon was notorious for editing homosexual relationships, but now we can't even vaguely suggest it. Are Americans that insecure with their sexuality? I guess so...
Episode 47: I actually can't confirm this, since I haven't seen the dubbed episode. I'm taking a shot in the dark here. In Juri's nightmare, she encounters a horrid phantom version of herself, complete with a sadistic-looking hand puppet. I assume this scene was cut out of fear it may be too scary, but I'm not 100% sure.