You mention "AppEngine's oauth2 library", but then you say "Drive API calls time out". So modifying the Oauth http library won't affect Drive.
Are you using the Google library for your Drive calls, or making direct REST HTTP calls?
If the former, try ...
HttpRequest.setConnectTimeout(55000)
, if the latter just ...
request.getFetchOptions().setDeadline(55d)
NB. Drive is having a brain fart today, so one would hope the underlying problem will go away of its own accord.