cli: fix negated boolean options not removing implied options #2160

Job	Run time
Build slim tarball	1m 31s
aarch64-darwin: with shared libraries	28m 3s
x86_64-darwin: with shared libraries	35m 11s
x86_64-linux: with shared libraries	26m 27s
aarch64-linux: with shared libraries	22m 36s
	1h 53m 48s

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