There were some bugs fixed in the BoCA repo after the original repo had been archived. Current fre:ac seems to encode this file correctly.
I tried freac-1.1.7-windows-x64.zip (2023-05-05) and the previous command did not work. Oh, you removed SuperLame from the list of encoders in favor of a dedicated flag --superfast. I applied it and witnessed some obscure warning. It would be nice to get a more detailed report on the encoding settings used.
$ freaccmd.exe history.wav -e superlame
Encoder 'superlame' is not supported by fre:ac!
$ freaccmd.exe
...
Encoder <id> can be one of:
ffmpeg-alac, fdkaac, flac, lame, meh, mac, mpc, vorbis,
ofr, opus, speex, tak, wv, wma, sndfile-wave, sndfile
$ freaccmd.exe history.wav -e lame --superfast
Warning: APIC ID are not supported, core count can be wrong if SMT is disabled and cache instances count will not be available.
Processing file: history.wav...done.