I have used the bootstrap framework to create a responsive site, however I have not used the bootstrap .container class.
For my project, all the content sits withing a div with a class of .wrapper. The wrapper is fluid and has a width of 80%, max with 1200px and min width 360px.
Within the wrapper I have used the standard .row and .col Boostrap classes.
I have tested the site and everything works as expected. The site validates and (even works on ie-9) and mobile devices.
html twitter-bootstrap responsive-design