England's bowlers removed opener Chris Rogers and number three Shane Watson cheaply to put the pressure back on to the home side before Warner and skipper Clarke released the brakes.
At lunch, the Australians had extended their overall lead to 304 runs at 145 for two with Warner on 83 and Clarke not out 34.
England captain Alastair Cook's tactic of setting fields to keep Clarke on strike against paceman Stuart Broad backfired when the Aussie skipper took up the challenge and settled into his innings after he went cheaply for one to the same bowler in the first dig.
Australia were keeping an eye on the weather after a brief shower sent the players from the field for 15 minutes during the morning session.
Rogers was out to Broad's first ball of the day as he loftily cut to Michael Carberry at point for 16.
Watson was pinned down by tight England bowling but went cheaply again in the match when he top-edged a pull shot off Chris Tremlett's third delivery high to Broad at mid-on for six.
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