- (line 19): $$ is not the pid. In fish, please use $fish_pid.
            set -g __zgod_session_id (echo "$$-"(date +%s))
                                             ^

There are still jobs active:

   PID  Command
 78083  zgod record \
        --ts "$start_ms" \
        --duration "$CMD_DURATION" \
        --exit-code "$exit_code" \
        --command "$__zgod_command" \
        --directory "$PWD" \
        --session "$__zgod_session_id" &

A second attempt to exit will terminate them.
Use 'disown PID' to remove jobs from the list without terminating them.