I don't know. The timeline is fine. It's just the story that is messed up with its loopholes and what not.
There are a lot of mysteries set inbetween each series and with it came forth a lot of speculation and assumptions. This probably led to people thinking the timeline is messed up due to differing perspectives. --- IN GENERAL: One way isn't the only way. And the only way isn't one way.
The original series has no story. It's basically random stuff every game. The X series isn't done yet thanks to X8's ending with Axl.
The Zero series is over with, ok.
Legends series isn't over, but the series ain't important anymore.
ZX series is the same with the X series, a faulty ending.
The BN and SF games are in their own timeline, but BN is over with, while SF could continue to go on, but it's dead as of right now.
The timeline is pretty cute so far, as somebody said it's just the stories for the certain series that's messed up. --- Currently Playing: Dat Ass! Carmine is a beast. No matter how many times he dies.
Don't forget that only up to X5 is canon for the X series (ends with the death of zero, and then his discovery in MMZ). After X5 was over Capcom bought out the rights to the series from the creator and kept making games. X6-8 are not part of the original story. --- SoulSilver Friend Code: 3610 3738 5535