I've never worked at a car repair shop so I don't know the numbers, but from what I've seen of friend's, coworkers, etc cars, I've never seen anything to indicate the certain manufacturers are "bulletproof" the way I often hear them touted. Instead, it seems like pretty much every manufacturer has lemons and good cars, and (for the most part), it more has to do with how a driver maintains a car--the majority of the cars I've seen that have lots of problems are older, high mileage, and not well maintained (surprise surprise). Whereas the well maintained cars work fine. 3 coworkers have vehicles with over 200k miles--a Chevy, a Jeep, and a Honda.
More to the point of Toyotas, I don't have a lot of experience with them, but I did "share" a Toyota with a roommate once. A 2000 MR2. I expect it would have some problems, being a first-year model. And, the engine/transmission held up during the time I was co-driver. But, the body/interior/trim was below average quality. Things like speakers rattling, bits of plastic breaking off, things like that. Then the gas door, which could only be opened by a lever from the interior, broke while we were at a gas station, on empty. Door couldn't be opened.
Roommate pried it open (it was a semi-emergency) and Toyota refused to fix it until my roommate spoke to 3 different dealerships then called Corporate.
I don't know what happened to the car in the end as my roommate refused to talk about it, but somehow the car caught fire when it was just over a year old. I do not know if it was vandalism, arson on my roommate's part (he was low on $ at the time), or mechanical issue, so I don't blame Toyota for that without knowing the story.