OK, so listen up. With only one alternate timeline, things are already complicated. But the writers can't ever just settle on "complicated" and had to go straight for "plot hole central".
So in "The Last Man", John gets sent into the future. Now, keep in mind that while he gets help from future!Rodney, this timeline is identical to John's timeline, i.e. the canon timeline, the one we're currently following.
In this timeline, we never found Teyla. Sam never went back to Earth and stayed behind dying a herioc death in battle. Yaddi yaddi yadda. But wait... if the timeline was identical, shouldn't Ba'al still have traveled back in time and changed things?
Or did Sam not returning to the Milky Way somehow Chaos Theory away Ba'als capture (by the Tok'ra)? Now, let's for the sake of argument assume Ba'al was captured. Ba'al should've still gone back in time and changed it. Daniel, Cam, Vala and maybe Jack would've still managed to get to the gate and go back in time (or so we assume).
But wait, without Sam there, who would've done the necessary calculations to send Cam back to the right moment in time. No one, that's why. In the "epic" battle at the end of alt!Continuum, SG-1 would've just died. And thus, when John arrived in the future, he should've arrived in an alternate timeline, one where there was no one to help him get back to his own time.
Of course, this can be explained away with "Without Sam's return, the Tok'ra wouldn't have captured Ba'al". But just sit down and moment and contemplate this all.
I doubt that Sam not returning to the Milky Way would somehow make it so that the last Ba'al clone or Ba'al himself were never captured and, thus, no Ba'al ever went back in time to change it.
So in "The Last Man", John gets sent into the future. Now, keep in mind that while he gets help from future!Rodney, this timeline is identical to John's timeline, i.e. the canon timeline, the one we're currently following.
In this timeline, we never found Teyla. Sam never went back to Earth and stayed behind dying a herioc death in battle. Yaddi yaddi yadda. But wait... if the timeline was identical, shouldn't Ba'al still have traveled back in time and changed things?
Or did Sam not returning to the Milky Way somehow Chaos Theory away Ba'als capture (by the Tok'ra)? Now, let's for the sake of argument assume Ba'al was captured. Ba'al should've still gone back in time and changed it. Daniel, Cam, Vala and maybe Jack would've still managed to get to the gate and go back in time (or so we assume).
But wait, without Sam there, who would've done the necessary calculations to send Cam back to the right moment in time. No one, that's why. In the "epic" battle at the end of alt!Continuum, SG-1 would've just died. And thus, when John arrived in the future, he should've arrived in an alternate timeline, one where there was no one to help him get back to his own time.
Of course, this can be explained away with "Without Sam's return, the Tok'ra wouldn't have captured Ba'al". But just sit down and moment and contemplate this all.
I doubt that Sam not returning to the Milky Way would somehow make it so that the last Ba'al clone or Ba'al himself were never captured and, thus, no Ba'al ever went back in time to change it.
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