I have a Trek 1000 and the only thing I ever had a problem with was the rear wheel; due to my weight, I kept popping spokes, after replacing the wheels all is well again. I like my Trek 1000, it is a great entry level bike and I think it is so cool to ride with guys on the $2000 bikes and crush them when all I paid was $550 for mine.
In my opinion, Trek makes a great bike, people I have ridden with love the way their madones handle and I do not here to many complaints against any of the other Treks I see on the road either. I do think they are overpriced, (I guess they are still riding the Lance wave).
I plan to buy myself a Cannondale R800 or better (CAAD 8 frame) as present to myself after I drop my weight under 200 pounds. I think Cannondale bikes are every bit as good as the Trek, Cannondale bikes they are just better priced. I think the Cannondale R1000 is a great deal, I do not think Trek can currently match.