This is a misunderstanding. The FCC has not tried to ban Wi-Fi device modding. What it might be requiring is locked-down radios. And only radios.
The phrasing of the recent guidance is unfortunately ambiguous, and calls out DD-WRT by name. But the original rules are clear [1], and staff guidance cannot trump Commission rules.
What's more, an attempt to ban third-party software would be inconsistent with the FCC's previous policy. The agency fined Verizon, for instance, when it tried to block third-party tethering apps [2].
[1] https://apps.fcc.gov/edocs_public/attachmatch/FCC-14-30A1.pd...
The software must prevent the user from operating the transmitter
with operating frequencies, output power, modulation types or
other radio frequency parameters outside those that were approved
for the device.
[2] https://www.fcc.gov/document/verizon-wireless-pay-125-millio...