Gus Fring's operation
14 episodes of Breaking Bad carry this thread, 14h in all — 14 of them are in The Essentials.
In airing order

Saul suggests a new business partner for Walt and Jesse after they begin to lose their dealers to some unforeseen circumstances. At work, Skyler confronts Ted after she uncovers some unnerving information; and Jesse opens up to Jane about what he does for a living, with disastrous results.

When Gus intensifies efforts to persuade Walt to get back in the meth business, Jesse takes exception and a rift appears in his and Walt's personal relationship. Meanwhile, Skyler's new relationship isn't turning out as she'd like; and Marie tells Skyler about her concerns for the increasingly troubled Hank and his well-being.

Hank's behavior becomes increasingly more unpredictable and volatile, which leads to a confrontation with Jesse and problems at the DEA; Skyler wants Walt to make a deal; and Gus' decisions result in some serious consequences.

The White and Schrader families anxiously await word on Hank's condition. Meanwhile, Jesse takes care of business at the lab while Walt tries to make peace with Gus, but after witnessing a terrifying flash of anger, Walt starts to fear for his and his family's lives.

Hank's stay in the hospital is accompanied by some daunting bills, but Skyler thinks she has a way of dealing with them. Meanwhile, some of the problems between Walt and Gus are ameliorated; and Jesse seeks more independence and grabs a profitable opportunity that presents itself.

Jesse ignores Walt's advice and finds himself in a dangerous situation. Fearing for Jesse's safety, Walt takes drastic measures to try to put things right. And tragedy strikes following an unexpected confrontation.

Jesse goes on the lam in the third-season finale. But Mike is right on his heels, so Walt works a deal with Gus and comes up with an unsettling plan that might help guarantee both his and Jesse's safety.

In the Season 4 opener, Walt and Jesse are confronted by the life-threatening consequences of their actions. Meanwhile, Skyler contends with a puzzling disappearance, and Marie finds it difficult to help a recovering Hank.

Skyler devises a plan to cure her money woes; Hank recruits Walt to help him work out a theory, while Walt grows impatient with Jesse.

Mistakes from Skyler's past prove to be impactful to the present; Gus is spurred to action against rivals; Jesse seeks help from Walt but the results are mixed.

The family becomes gravely concerned when Walt doesn't show up for his son's 16th birthday celebration. And Jesse's lab skills are tested in Walt's absence.

Walt moves to protect his secret and Gus; Skyler is stymied in her attempt to help Ted with his financial problem.

Hank leans on Gomez to explore one final lead, as Walt scrambles to protect his family. Meanwhile, Jesse learns some unsettling news and races to share it with Walt.

The fourth season ends with Walt and Jesse squaring off against Gus. Elsewhere, Walt acquires a surprise confederate with help from Saul.