SAN FRANCISCO — Alex Smith's fate with the San Francisco 49ers won't be decided until the former No. 1 draft pick returns from his honeymoon in a few days.

That won't stop general manager Scot McCloughan from shopping for new quarterback talent while Smith is gone.

McCloughan remained hopeful Thursday that the 49ers can keep Smith, who was McCloughan's first draft pick and the centerpiece of his attempt to rebuild the franchise. After two years of injury problems, Smith and McCloughan both realize the quarterback can't return to the club at his $9 million base salary for next season, and Smith has indicated he's willing to renegotiate.

"The conversation has been positive through Alex and through his agent (Tom Condon)," McCloughan said. "We'd love to have him back as a 49er. ... There's no set timeline, (but) I think from everybody's standpoint, sooner would be better, because if he wants the opportunity to start at quarterback, he has to go through the entire offseason program to earn that spot."

The 49ers' first team workouts are scheduled to start March 16, so Smith would have to rework his deal in the next two weeks to participate. McCloughan said the 49ers conceivably could keep Smith on the roster all the way to training camp, but couldn't allow him on the field without a reworked contract for fear of injury.

McCloughan acknowledged Smith is in a difficult position.

"For us to ask him to restructure, that's kind of a shock," McCloughan said. "He's under contract for two more years, and for us to ask him to take a pay cut, it's kind of a blow to the ego."

Smith missed last season with a shoulder injury. He also struggled in 2007 after separating his shoulder and then attempting to return too soon, with his problems causing a rift between Smith and coach Mike Nolan.

With Nolan gone and coach Mike Singletary in charge, Smith would return to the 49ers under offensive coordinator Jimmy Raye — San Francisco's seventh offensive coordinator in seven seasons, including the fifth for Smith and running back Frank Gore.

McCloughan realizes the 49ers' utter lack of continuity has hampered Smith's career nearly as much as his injured shoulder. But he believes those days have ended with the hiring of Raye, a veteran coordinator who got the job last month after Scott Linehan turned it down.

McCloughan, who chose Smith ahead of Aaron Rodgers and Braylon Edwards in the notoriously flimsy 2005 draft, still believes the former Utah star has potential he hasn't tapped. Smith has passed for 4,679 yards in 32 games, along with 19 touchdown passes and 31 interceptions

"I'm a fan of Alex Smith," McCloughan said. "I think being 24 — he'll be 25 next year — he's got a lot of good football ahead of him. We need to get an identity on offense. We need to get a structure in place that's consistent more than one year. I think you'll see not just the quarterback position, but all positions on offense, take a step forward."

Shaun Hill finished last season as the 49ers' starting quarterback, but McCloughan and Singletary have been reluctant to back Hill for the full-time job despite his winning record. McCloughan seems likely to pursue at least one veteran free agent quarterback to compete for the starting job.

But don't expect the 49ers to pay top dollar for a big-name free agent as they've done in recent signing periods, even though San Francisco is fairly healthy against the salary cap.

"It's not going to be a big splash like it was with Nate (Clements) or with Justin (Smith)," he said. "We're not going that route this year, but know this: We are going to use free agency as a tool to make our roster better."