My read is that the order had both conditions: preserving records, and gagging against revealing the order.
In this case, they just sent that "preservation letter" and in the letter said not to alert the user: Techdirt (somewhat reasonably) is portraying that as "effectively" a gag order. They didn't go on even to issue a subpoena here, and so they also didn't go get an actual gag order, but it's something they've been known to do.