Hi,
I work at TOM BIHN -- we make the 3D Clear Organizer Cube.
The 3D Clear Organizer Cube was designed by Tom specifically as a 3-1-1 bag, and it's been successfully used as such by thousands of customers since its debut in April of 2009. We've used it on all of our trips for the past two years without issue. To our knowledge, W-N is the first customer that has had their 3D Clear Organizer Cube rejected at the security checkpoint.
As others have noted, the TSA 3-1-1 guidelines state that one must use a: 1 quart-sized, clear, plastic, zip-top bag
We believe our 3D Clear Organizer Cube matches that description. And, until now, the TSA personnel that have inspected the 3D Clear Organizer Cubes of thousands of customers have agreed.
We'll see if we can reach someone at the TSA to get some clarification on this issue.