On July 26 a FAQ was added to the site, which went on to claim that they would release a fixed version of WinM.U.G.E.N before major format changes in the next version, and noted the formatting changes would remove compatibility in regards to older works: 'Do not expect old characters to work. In mid 2007, Elecbyte's site returned, though not without some controversy as to the legitimacy of it, as it only showed a single logo with Google ads on the side. As of June 2007, an unofficial Winmugen was also made available on a Japanese website. In December 2007, a hack from an anonymous source allowed both low-res and hi-res stages to be functional in the same build. In July 2007 another hack based on the last high-res hack allowed for only the select screen to be high-res and not the stages.

Later that month, another hack was done to add support for high-res select screens. In May 2007, a hacked version of WinM.U.G.E.N was released by a third-party that added support for high resolution stages at the cost of losing support of standard resolution M.U.G.E.N stages. Team Co-op is similar to Simul, except that both human players fight on the same side and at the same time. Pre-Win M.U.G.E.N versions of the engine could have this feature adjusted or disabled via the options screen or the config file, but due to the nature of the hack, the option has not yet been reactivated. If one side has two characters and the other has only one in one of the Team modes, the two characters that are on the same side will each have half their respective normal maximum life values. If set, the characters' starting life will be adjusted according to the number of players on each side. Single is identical to not having a team, Simul gives that side a computer-controlled partner who fights simultaneously, and Turns uses a different character for each round of play, varying through a set number (usually from 2 to 4) of different characters in a row. In Team mode, either side can use any of the team modes. A fourth mode, Tag, is listed in the EXE along with two related script controllers, but was never used. There are also three different kinds of Team modes: Single, Simul, and Turns. The first gameplay mode is the Arcade mode, where a player controlled character encounters CPU controlled characters in a random or set order which can be entirely customized.

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