For my DEQM "W" fares SFO-ORD-SFO, I did the following
- Searched using systemwide Region 2 without inputting the e-cert
- Found the flights I wanted with "W" fare basis
- Called websupport
- Gave the agent the flights I wanted saying I needed it to be in "W"
- Websupport agent found the flights at the same fare
- Websupport agent booked the flight with the e-cert
If you then want to apply an upgrade, go online and apply it yourself after the ticket is booked