I'm finalizing the design of my LPF/VSWR/Relay board that stacks with the radioberry here and have encountered the same problem on my 3 prototype boards. They basically use band switch commands compatible with the N2ADR filter board so no software needs to be reconfigured.
I'm not an expert on gate arrays, but it appears to me from the data sheet that the Intel gate array output pins are guaranteed to come up from a power down state neither HIGH nor LOW - but somewhere in between. There's a confusing table of best and worst case values in that document.
I have estimated a worst case for the situation to be fixed using a 3.9k resistor from pin 5 to ground. This seems to be enough to keep below the ULN200x series darlington threshold at power up on my 3 prototype systems. After initialization, the pin goes to a more solid 3.3 V. and the 3.9k resistor does not appear to be loading the signal in any way.
Note that the N2ADR board in the HL2 uses a few more gate inversions to act on the TX signal and disable the HPF in hardware from the gate array and the subsequent gates all happen to come up correctly in that radio without needing any fix. As we are all discovering, driving a darlington relay driver directly from the pin is a bit different situation - especially because loading the board from software may not always occur in cases where the software driver is missing or disabled in some other way.
The only nuisance is that if you apply the resistor to the radioberry board, the ground is at the other end of the connector, so you have to use a TH resistor with longer leads. I've put the resistor into the next rev for my PCB, but for now, the prototypes all have the resistor hanging under the radioberry's connector to fix the problem.
By the way, if anyone has any problem using the 3.9k value for a fix, please let me know so I can adjust the value here...
Hope this helps...
Mario - AE0GL