初期状態

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cat /proc/acpi/wakeup | grep enable

>
    EHC1	  S3	*enabled   pci:0000:00:1d.0

XHC S3 *enabled pci:0000:00:14.0 PWRB S3 *enabled platform:PNP0C0C:00 SLPB S3 *enabled platform:PNP0C0E:00 LID0 S3 *enabled platform:PNP0C0D:00

設定の変更

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echo XHC > /proc/acpi/wakeup
echo EHC1 > /proc/acpi/wakeup

結果

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cat /proc/acpi/wakeup | grep "XHC\|EHC1"

>
    EHC1	  S3	*disabled  pci:0000:00:1d.0

XHC S3 *disabled pci:0000:00:14.0

「XHC」と「EHC1」が両方disabledになればおk