"They're not going anywhere," York told Tim Kawakami of The San Francisco Standard.
The 49ers have struggled through an injury-plagued and mistake-riddled 2024 campaign and will miss the playoffs for the first time since the 2020 season. That has sparked significant speculation surrounding Shanahan and Lynch.
When asked about York's comments, Shanahan downplayed their significance, citing his strong relationship with the 49ers' ownership.
"I've got a good relationship with Jed, and we speak almost every day, so hearing stuff in the media doesn't really change much for me," Shanahan said. "It's more what I have between him and myself."
When asked if the relationship has always been open and consistent, Shanahan replied, "Yeah, definitely. No, Jed is very easy to talk to. We've known each other here for, now eight years, and we feel very fortunate for how he is through the good and the bad. And the communication really never changes, regardless of what's going on."
The 49ers extended Shanahan's and Lynch's contracts with multi-year deals ahead of the 2023 season.