I ran into the same problem. In my case, I had 3 HSAs - 2 prior employers and 1 current. So I moved all the money into the current employer's HSA, which has no fees while I'm employed at least. One acct I'm doing a direct transfer (and paying the fee), one account I did the send me a check workaround and thus avoided the fee.
On the bright side, it also consolidated so I only have one HSA card in my wallet.