It is definitely two bikes. Sam's Duc is a 2010 Sport Classic. Somewhere here is a thread I posted with a link to a Ducati forum, a thread by the guy whose bike they used in the film.
I'm not sure if we're ever told which bike Flynn's is. It seems once I'd read it was a '78, though.
ETA: here are pics of it, in front of the house, and Flynn about to leave:
http://movies.homeofthenutty.com/displayimage.php?album=140&pid=150516#top_display_media
http://movies.homeofthenutty.com/displayimage.php?album=140&pid=150567#top_display_media
Oh, good. The site with the screencaps is back. Look on the left; it's dusty as hell, but that's his dad's bike, I assume:
http://movies.homeofthenutty.com/displayimage.php?album=140&pid=150899#top_display_media
Here it is again:
http://movies.homeofthenutty.com/displayimage.php?album=140&pid=150925#top_display_media
And one more:
http://movies.homeofthenutty.com/displayimage.php?album=140&pid=150943#top_display_media
I'm not surprised Sam has it. No doubt the police picked it up, and Sam's grandparents might've saved a lot of Flynn's stuff for Sam (or, in hopes that Flynn was coming back). Isn't it mentioned somewhere that Flynn's bike was found at the arcade, but no trace of him? Or maybe I'm misremembering. It absolutely makes sense that that is what happened-- because Flynn went to the arcade that night and never left it. Where else would his bike be, then, if not parked outside the arcade where he left it?
The question I always had is...why is it taking Sam so long to fix it up? The bike legally would have become his at age 18, right? Even if it's been sitting for 20 years, what can it possibly need? Carbs cleaned, new tires, maybe some rust cleaned out of the gas tank. Worst case scenario, engine rebuild or replacement. Body should be in good shape as it's been covered by a tarp in a shed (and in CA, not somewhere like Ohio or WI where the cold would've taken a toll in things like cracking the seat, etc.). I can't imagine anything that bike might need that would take 9+ years to fix... a few good weekends, maybe, but hell, Sam doesn't even have a job (we assume? Is it ever explicitly stated that he doesn't, or do we just sort of infer that somehow?), so he can spend 40+ hours a week on it if he wants to. (ETA: plus it's
filthy. He couldn't even wipe it down before he stuck it in a corner??? *In 9 years???*)
But yes, it does bother me that the police never found the hidden door behind the
Tron machine. Nor did Alan, who I assume has also been over the place with a fine-tooth comb.
From what we see in the film, it seems that Sam figures it out from a groove on the floor left by the machine being moved.
http://movies.homeofthenutty.com/displayimage.php?album=140&pid=151038#top_display_media
Personally, this wouldn't tell me "hey this thing moves!" (I'd be more likely to think it was done when the machine was put into place or something) but maybe there is some reason he has to think so, that the police and Alan wouldn't.