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Looking at the mongod log after issuing a setParameter command setting logLevel to 2, the log reports that I did something different:
Shell:

> db.adminCommand({ setParameter : 1, logLevel : 2 })

{ "was" : 0, "ok" : 1 }

mongod log:

Mon May 21 19:46:27 [conn1] runQuery called admin.$cmd { replSetGetStatus: 1.0, forShell: 1.0 }

Mon May 21 19:46:27 [conn1] run command admin.$cmd { replSetGetStatus: 1.0, forShell: 1.0 }

Mon May 21 19:46:27 [conn1] command: { replSetGetStatus: 1.0, forShell: 1.0 }

Mon May 21 19:46:27 [conn1] command admin.$cmd command: { replSetGetStatus: 1.0, forShell: 1.0 } ntoreturn:1 keyUpdates:0 reslen:76 0ms

is related to

SERVER-18985 setParameter should log at level 0