When I asked if he expected a quick resolution to the pending negotiations with Purdy — which can’t begin until after the 49ers’ regular-season finale on Sunday in Arizona — York demurred, saying only that he hopes Purdy is the team’s quarterback for a long time .

Of course, none of this is a surprise. York went through a merry-go-round of coaches and executives before hiring Shanahan and Lynch shortly after the 2016 season and has no desire to repeat that. He has his coach and general manager. Shanahan and Lynch slowly rebuilt the 49ers’ roster, then broke through in 2019, making it to that season’s Super Bowl with QB Jimmy Garoppolo and a host of young stars.

They suffered an injury-plagued season in 2020 and then traded away three first-round picks to move up in the 2021 draft and select Trey Lance, who failed to nab the job. But they drafted Purdy with the last pick in the 2022 draft and watched him develop into their long-term starting QB. Purdy led the 49ers to the NFC Championship Game next January and to the Super Bowl after the 2023 season.

This season, the 49ers (6-9 heading into Monday’s game) are on pace for a potential top-12 draft pick and their second losing record in the last six. Overall, the 49ers made the playoffs four times during the eight-year Shanahan/Lynch era – but won at least two postseason games in each of those playoff seasons.

At 49ers headquarters, Shanahan and Lynch stayed in step even as the losses piled up — and they can be seen chatting before almost every practice. And in stark contrast to the public whispers during Jim Harbaugh’s final years with the 49ers, there were no public or private indications of tension between the team’s three leaders.

Additionally, both men signed contract extensions in 2023 that guarantee them money through 2026 — and likely longer. Shanahan is expected to earn around $15 million per year through 2027.

“I don’t want to be anywhere in the world more than here,” Shanahan said when asked this month about rumors that he might move to another team. “And my family is just as strong, if not much stronger. You have to throw me out of here.”

Shanahan isn’t going anywhere, at least for another year. Neither does Lynch. It wasn’t a secret, but now York says there is certainty.