After spending this past weekend at home while the Jets lost to the Saints in New Orleans — his latest punishment in a lengthy history of rules violations — defensive lineman Muhammad Wilkerson was at the team facility in Florham Park on Monday. His future with the franchise this season, however, remains unclear. Todd Bowles said he and the front office have yet to decide how they will handle Wilkerson for the rest of this year. The coach wouldn’t confirm if Wilkerson will play Sunday against the Chargers in the Jets’ last home game, or if he will play in the season finale at the Patriots on New Year’s Eve. When asked if he expects Wilkerson to practice Wednesday when the Jets hold their first session of the week, Bowles said, “We'll see.” “It’s an internal thing,” Bowles said. “We’re still working through some things, and we’ll go from there.” Bowles benched Wilkerson for the Saints game after the former first-round pick was late to a meeting Friday. It was at least the second time this season Bowles punished Wilkerson for tardiness, and at least the fourth time in the past three seasons. Wilkerson, who was also benched for nearly the entire first quarter of the Jets’ victory over the Chiefs on Dec. 3, is the highest-paid player on the team with a cap hit of $18 million. The Jets could cut Wilkerson before the third day of the new league year in March and save $11 million in cap space, while still incurring a dead-money charge of $9 million. A team source told the Daily News on Dec. 7 that Wilkerson is “gone” after this season