In Sonic Adventure and its enhanced port, Sonic Adventure DX Directors Cut, the Egg Carrier 2 was built in case a rebellion from one of his subsidiaries. When Chaos retaliated against his former master, it was launched by Eggman to combat Perfect Chaos, though it never lasted more than a minute, as Chaos's powers seemed to surpass that of the new war ship. Subsequently, Chaos managed to obliterate the carrier with a single, powerful blast, destroying the Egg Carrier 2.
In the Sonic X adaption of the game, the Egg Carrier 2 was launched to defeat Chaos, much to Sonic's irritation. While at first seemingly impressive, Chaos managed to deflect the attacks in a similar fashion to the helicopters, and blew the war ship out of the skies, sending Eggman, Decoe and Bocoe flying.
The Egg Carrier 2 seemed to have no difference to the original carrier, despite having a large number 2 painted on its flank. Possesing the exact same firepower and prowess, it was meant to be a back-up plan in case of any rebellion, such as Chaos.