Lawmakers expressed concern that some empty cargo containers are not being checked upon entry to U.S. ports.
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The legislation also includes language to close loopholes allowing the Homeland Security Department to contract with off-shore companies.
Service chiefs agree to testify in hearings that could foreshadow which military bases will be closed.
The $30.8 billion legislation would maintain a 45,000 cap for Transportation Security Administration airport passenger screeners.
Homeland Security Committee Chairman Christopher Cox, R-Calif., says housing such efforts within the CIA is only an "interim step."
Judiciary Committee gets a week's extension to take its shot at revamping the federal process for issuing grants to first responders.
House Homeland Security Committee chairman takes on filmmaker Michael Moore.
But the Defense Department will get only limited flexibility in spending the funds.
Transportation and Infrastructure Chairman Don Young, R-Alaska, says Homeland Security Committee should focus on oversight, not legislation.
President Bush accepted his resignation Wednesday night; said he has done a "superb job."