The move came amid increased inspections from retailers who are checking 1,500 factories in an effort to prevent a repeat of the disasters that have killed thousands of workers in recent years.
A top government official told AFP that a government panel ordered the closure of four factories in a multi-storied complex in the port city of Chittagong and two floors of separate factories in the capital Dhaka.
"We've found serious structural flaws in the Chittagong building complex. It was too risky. So we have shut down the building," said Syed Ahmed, head of the department of factory inspections.
The factories are the latest to have been shut down after three Dhaka factories were closed under similar circumstances last month, leaving at least 4,000 workers jobless.
Bangladesh is the world's second-biggest clothing manufacturer and the USD 22 billion sector is the mainstay of the impoverished South Asian nation's economy.
But the sector has a woeful safety track record, highlighted by the collapse of the Rana Plaza on April 24 last year on the outskirts of the capital, which killed 1,135 people in Bangladesh's deadliest industrial disaster.