The Gunmen briefly reappeared several months later, as ghosts with whom Mulder seemed to be able to communicate. The trio appeared to him alone, at the side of a road on the Texas-New Mexico border at approximately 5:07 a.m., while Mulder was urinating, having stopped off on the way to New Mexico. Apparently, the apparitions of the Lone Gunmen tried to dissuade Mulder from proceeding to New Mexico with Scully and continuing to search for the truth of colonization once there, but Mulder ignored their warnings and continued on his way. (TXF: "The Truth")
In the comic book adaptation of the series The X-Files Season 10â"which takes place after the events of The X-Files: I Want to Believeâ"it is revealed that the Lone Gunmen are alive and well, having faked their deaths during the events of "Jump the Shark". The group was aided by the FBI and have since been working underground, aiding the US government; for instance, Langly mentions that he was responsible for the Stuxnet virus in 2010. However, this retcon wouldn't make any sense at all since The Lone Gunmen showed themselves to Mulder as a ghost in the Truth.
It pissed me off when they killed the the lone gunmen off since it was a series I enjoyed. Having them show up as ghosts confirmed the deaths.
It's going to have to be an amazing explanation to explain the whole ghost bit.
I'll enjoy watching x-files again - but I'm flipping my middle finger at the idiots that think that this kind of retcon will relaunch the series.