When the hood is forcing Brains to stamp his hand, he says "Like a puppet on a string," a reference to the original series' string puppets.

When Alan and Fermat are in Thunderbird One a puppet hand is lowered onto the controls in place of Fermat's.

Look at the hover bike the kids try to escape on, it has a seven printed on it. This is reference to the Thunderbirds each having a number on them (therefore saying this is the seventh Thunderbird). Thunderbird 6 was the title of an earlier Thunderbirds movie.

The hover bike the kids find in the scrap yard is an exact "real life" copy of a model used in the original TV series in at least one or two episodes.

The reason Lady Penelope's car was not a Rolls Royce, as in the original series, is because Rolls Royce were concerned that should the film be a flop then that would affect its sales and reputation. The film did flop in the U.S. box office.

Lady Penelope's pink car is not a Ford Thunderbird at all. The car was designed and made at Pinewood and Shepperton studios, using a specially designed engine, running gear, etc. Ford let them use the design for the front of the car from their current Thunderbird.