Now facing this issue... By using 'adjtimex' command, you can clear the problematic INS bit.

At first, you can confirm the status flag like this.

    $ ./adjtimex --print | grep status
    status: 8209

8209's binary representation is like this. This surely have INS bit "100000000[1]0001" (5th LSB).

    $ ruby -e 'p 8209.to_s(2)'
    "10000000010001"

8193 is the value after the clearance of the INS big.

    $ ruby -e 'p 8193.to_s(2)'
    "10000000000001"

Then, let's set it as a current value. Please ensure your ntpd is not running.

    $ adjtimex --status 8193