Just finished the game and it was quite a ride. It seems to me that defeating the Whispers served to undo much of what they did in the remake's timeline, going by how Zack and Biggs are now alive. And I think there's a very good chance Jessie and Wedge are, too. That's definitely her glove on the dresser, it's got the metal backing on it and the red wraparound thing. And then there are the three pencils in the cup, a visual clue that all three members of the trio are alive now. I so hope that's true, I really enjoyed those guys, especially Jessie, of course.
And if Jessie does return for Part 2 - which I think there's a good chance of, given the presence of her glove there teasing that very thing - then that would be really great. Her popularity's shot up ever since the demo came out, and even more with the release of the full game. So I think it's a good possibility she'll be back. And teasing her survival rather than showing it outright is a brilliant way of keeping people invested in her and her possible return. If she does appear in Part 2, I think there's a fairly strong chance that she may be added as a new possible partner for the Gold Saucer date, if it's that installment, especially considering she used to work there as an actress in the very play that was part of the date in the OG timeline. That would add a whole new angle to those events, and maybe give her and Cloud the chance to share that pizza they were never able to have in Part 1. Considering her history at the Gold Saucer, it also makes me wonder if she ever knew Cait Sith - he knows a lot of people there, so it's possible. And through him, she could know Reeve as well.
Aerith said that if they won, they would be changed. Destinty would be changed. So whether it's an alternate timeline or the same one but with certain events changed due to the Whispers' interference being undone, the outcome is still the same, I think. Things are different, people whose original destiny was to die (like Zack and Biggs, and hopefully Jessie and Wedge) are now alive. So the FFVII story isn't going to go quite the way we remember, I don't think.