In addition, internal strife, such as the arbitrary distinction between Coordinators and Naturals, and mechanized terrorism, seem to be taking the New United Nations to the breaking point.

On June 13, SC 99, Kazuma Ardygun and his family, a group of Trailers, are tasked with the job of escorting Quatre Raberba Winner and Duo Maxwell, disguised as "Heero Yuy", to Earth... W marks the first Super Robot Wars game (aside from the Original Generation sub-series) to feature no machines from any series produced before 1980.

It is also the first in the franchise which features no series produced by veteran anime director Yoshiyuki Tomino.

Unlike previous games, the interface is changed slightly to make use of the Nintendo DS's dual screens.

An additional "Bazaar Shop", similar to the one seen in Super Robot Wars Alpha Gaiden, is unlockable after completing certain requirements.

Lastly, the "Favorites Series" system, introduced in Super Robot Wars MX, returns.

One noticeable change in the plot is the story in Super Robot Wars W is separated into two timelines, allowing some of the series (like Nadesico, GaoGaiGar, Tekkaman Blade, Full Metal Panic) to continue in their respective sequels.