If Jesse ever finds out that Walt is the one that makes Brock sick, and considering this is television, he likely will, there will be a show down to the death between the partners. While Walt grows less and less in touch with his decent side, Jesse develops in the opposite direction. The youth is a hardened druggie when Walt begins working with him. They seem to develop a friendship as Jesse cares more about life, and even finds love. He turns into someone who would like to be a contributing, productive member of society. Yet, Walt doesn't care much about Jesse, either, even though he rescues him, since Walt is willing to risk the life of someone Jesse loves to manipulate him. As things stand now, fans will be rooting for Jesse to kill Walt once and for all, to stop Walt before he becomes does something even worse than he's already done.
But there are still sixteen hours of Breaking Bad left before the series comes to a close forever. The writers will not allow such a shown down to be the only plot for that long. Though Walt burns Gus's lab, his new personality probably will not keep him out of the drug business for long. Will he include Jesse when he tries to become the next big boss in the area, as he surely will, or will Walt cut Jesse out now? Kingpins do not have partners. Jesse and Walt's family, on the other hand, would be happy living calm, peaceful lives from here on out. Too bad Walt's actions will bring them more trouble.
Also, Mike (Jonathan Banks) sits out the entire showdown, still recovering from injuries. This is probably the only reason that Walt is able to succeed in taking out Gus. Would Mike be willing to work for Walt? Or might he seek revenge for Gus's murder?
Breaking Bad will return to AMC next year for a final,16-episode fifth season.